Merge pull request #311 from CGATOxford/{TS}-BarcodeExtractEitherRead

{ts} barcode extract either read
CGATOxford · Feb 1, 2019 · 07713b8 · 07713b8
2 parents 5f5c0c2 + b6958bc
commit 07713b8
Show file tree

Hide file tree

Showing 10 changed files with 22,632 additions and 179 deletions.
diff --git a/tests/README b/tests/README
@@ -0,0 +1,3 @@
+Command to make test files for umi_tools extract --either-read testing:
+
+cd tests; paste <(zcat indrop.fastq.1.gz) <(zcat indrop.fastq.2.gz)|paste - - - - - - - -| awk -F "\t" 'BEGIN{OFS="\n"; srand(0)} {if(rand()>0.5) {print $1,$3,$5,$7 > "delete_me"; print $2,$4,$6,$8 > "delete_me2"} else {print $2,$4,$6,$8 > "delete_me"; print $1,$3,$5,$7 > "delete_me2"}}'; gzip delete_me2 -c > indrop.fastq.2_either_read.gz; gzip delete_me -c > indrop.fastq.1_either_read.gz; rm delete_me delete_me2
diff --git a/tests/either_read.fastq.1.gz b/tests/either_read.fastq.1.gz
diff --git a/tests/either_read.fastq.2.gz b/tests/either_read.fastq.2.gz
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1,3 @@
		Command to make test files for umi_tools extract --either-read testing:

		cd tests; paste <(zcat indrop.fastq.1.gz) <(zcat indrop.fastq.2.gz)\|paste - - - - - - - -\| awk -F "\t" 'BEGIN{OFS="\n"; srand(0)} {if(rand()>0.5) {print $1,$3,$5,$7 > "delete_me"; print $2,$4,$6,$8 > "delete_me2"} else {print $2,$4,$6,$8 > "delete_me"; print $1,$3,$5,$7 > "delete_me2"}}'; gzip delete_me2 -c > indrop.fastq.2_either_read.gz; gzip delete_me -c > indrop.fastq.1_either_read.gz; rm delete_me delete_me2