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rearrange cell reads file with shard number
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rsc3 committed Feb 13, 2024
1 parent 5830e7d commit 7aa1fc4
Showing 1 changed file with 0 additions and 6 deletions.
6 changes: 0 additions & 6 deletions tasks/skylab/StarAlign.wdl
Original file line number Diff line number Diff line change
Expand Up @@ -507,11 +507,6 @@ task MergeStarOutput {
declare -a align_features_files=(~{sep=' ' align_features})
declare -a umipercell_files=(~{sep=' ' umipercell})

# for cell_read in "${cell_reads_files[@]}"; do
# if [ -f "$cell_read" ]; then
# cat "$cell_read" >> "~{input_id}_cell_reads.txt"
# fi
# done
# Destination file for cell reads
dest="~{input_id}_cell_reads.txt"
# first create the header from the first file in the list, and add a column header for the shard id
Expand All @@ -535,7 +530,6 @@ task MergeStarOutput {
# add the matrix to the destination file, then delete the matrix file
cat "matrix.txt" >> "$dest"
rm "matrix.txt"


counter=0
for summary in "${summary_files[@]}"; do
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