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Fix sorting with header row; #58

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Fix sorting with header row; #58

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4 changes: 2 additions & 2 deletions src/FitHiC_SigInt.r
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Original file line number Diff line number Diff line change
Expand Up @@ -1748,7 +1748,7 @@ if (0) {
}

# now sort the file contents and write that in the final specified output file
system(paste('sort -k1,1 -k2,2n -k5,5n', paste0('-k',opt$cccol,',',opt$cccol,'nr'), temp_outfile, '>', opt$OutFile))
system(paste('(head -n 1', temp_outfile, '&& tail -n +2', temp_outfile, '| sort -k1,1 -k2,2n -k5,5n', paste0('-k',opt$cccol,',',opt$cccol,'nr'), ')>', opt$OutFile))

} # end dummy if

Expand All @@ -1772,7 +1772,7 @@ if (1) {
system(paste("rm", temp_outfile_2))

# now sort the file contents and write that in the final specified output file
system(paste('sort -k1,1 -k2,2n -k5,5n', paste0('-k',opt$cccol,',',opt$cccol,'nr'), temp_outfile, '>', opt$OutFile))
system(paste('(head -n 1', temp_outfile, '&& tail -n +2', temp_outfile, '| sort -k1,1 -k2,2n -k5,5n', paste0('-k',opt$cccol,',',opt$cccol,'nr'), ')>', opt$OutFile))

} # end dummy if

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