#!/usr/bin/bash

# 20230818

mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00171.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00171/HG00171.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00268.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00268/HG00268.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00358.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00358/HG00358.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00732.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00732/HG00732.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG00733.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG00733/HG00733.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.asm-hap2.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.asm-hap2.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.asm-rdna.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.asm-rdna.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.asm-unassigned.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.asm-unassigned.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01114.vrk-ps-sseq.contaminants.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01114/HG01114.vrk-ps-sseq.contaminants.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01352.vrk-ps-sseq.asm-disconnected.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01352/HG01352.vrk-ps-sseq.asm-disconnected.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/statistics/assemblies/HG01352.vrk-ps-sseq.asm-hap1.summary.tsv /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01352/HG01352.vrk-ps-sseq.asm-hap1.summary.tsv
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/statistics/assemblies/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG01457
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19331
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19331
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19331
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19331
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19384
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA19384
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/hg38/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00171/HG00171.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00268/HG00268.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00358/HG00358.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00732/HG00732.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG00733.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733/HG00733.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01114.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114/HG01114.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01114.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114/HG01114.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01114
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01352/HG01352.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01457/HG01457.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505/HG01505.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG01505
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02018
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02059
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02106.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106/HG02106.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02106.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02106/HG02106.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02282/HG02282.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02554/HG02554.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02587.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587/HG02587.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02587
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02666/HG02666.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02769.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769/HG02769.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02769
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02818
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02953.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953/HG02953.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02953.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953/HG02953.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG02953.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953/HG02953.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG02953
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03248.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248/HG03248.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03248
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03452.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452/HG03452.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03452.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452/HG03452.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03452.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452/HG03452.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03452.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452/HG03452.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03452
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03520.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520/HG03520.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03520.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520/HG03520.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03520.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520/HG03520.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03520.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520/HG03520.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03520.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520/HG03520.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03520
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03683.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683/HG03683.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03683.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683/HG03683.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03683.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683/HG03683.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03683.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683/HG03683.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03683
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG03807.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807/HG03807.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG03807
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04036.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036/HG04036.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/HG04217/HG04217.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989/NA18989.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA18989
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19036.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036/NA19036.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036/NA19036.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19036.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036/NA19036.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19036
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19129/NA19129.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19317/NA19317.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19331/NA19331.vrk-ps-sseq.asm-unassigned.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19347.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347/NA19347.vrk-ps-sseq.asm-rdna.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19347.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347/NA19347.vrk-ps-sseq.asm-rdna.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19347.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347/NA19347.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19347.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347/NA19347.vrk-ps-sseq.asm-unassigned.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19347
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-disconnected.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap1.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.sort.bam.bai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/eval/wd/results/alignments/contig_to_ref/t2tv2/bam/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384/NA19384.vrk-ps-sseq.asm-hap2.t2tv2.unmapped.bam
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19384
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19836
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA19983
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/alignments/contig_to_ref/t2tv2/NA20355
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00268
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00358
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00732
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/HG00733
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mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA20355.ps-sseq/NA20355.ps-sseq.exemplar-mito.fasta.gz.gzi /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355/NA20355.ps-sseq.exemplar-mito.fasta.gz.gzi
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA20355.ps-sseq/NA20355.ps-sseq.exemplar-rdna.fasta.gz /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355/NA20355.ps-sseq.exemplar-rdna.fasta.gz
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA20355.ps-sseq/NA20355.ps-sseq.exemplar-rdna.fasta.gz.fai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355/NA20355.ps-sseq.exemplar-rdna.fasta.gz.fai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA20355.ps-sseq/NA20355.ps-sseq.exemplar-rdna.fasta.gz.gzi /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA20355/NA20355.ps-sseq.exemplar-rdna.fasta.gz.gzi
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-ebv.fasta.gz /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-ebv.fasta.gz
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-ebv.fasta.gz.fai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-ebv.fasta.gz.fai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-ebv.fasta.gz.gzi /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-ebv.fasta.gz.gzi
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-mito.fasta.gz /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-mito.fasta.gz
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-mito.fasta.gz.fai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-mito.fasta.gz.fai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-mito.fasta.gz.gzi /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-mito.fasta.gz.gzi
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-rdna.fasta.gz /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-rdna.fasta.gz
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-rdna.fasta.gz.fai /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-rdna.fasta.gz.fai
mkdir -p /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487
rsync --progress --checksum /gpfs/project/projects/medbioinf/projects/assemblies/hybrids/verkko/wd/results/assemblies/verkko/NA21487.ps-sseq/NA21487.ps-sseq.exemplar-rdna.fasta.gz.gzi /gpfs/project/projects/medbioinf/data/00_RESTRUCTURE/shares/globus/outgoing/hgsvc/ebi_upload/20230818_verkko_batch1/assemblies/NA21487/NA21487.ps-sseq.exemplar-rdna.fasta.gz.gzi
