From ceb1a6ef1ae8b027c200a8b86eea0ab69d4783e4 Mon Sep 17 00:00:00 2001 From: Chris Cheshire Date: Thu, 18 Jun 2020 15:44:27 +0100 Subject: [PATCH] luslab-umitools | Cleaned up sample file names --- ...gned.sortedByCoord.out.bai => sample1.bai} | Bin ...gned.sortedByCoord.out.bam => sample1.bam} | Bin ...gned.sortedByCoord.out.bai => sample2.bai} | Bin ...gned.sortedByCoord.out.bam => sample2.bam} | Bin ...gned.sortedByCoord.out.bai => sample3.bai} | Bin ...gned.sortedByCoord.out.bam => sample3.bam} | Bin ...gned.sortedByCoord.out.bai => sample4.bai} | Bin ...gned.sortedByCoord.out.bam => sample4.bam} | Bin ...gned.sortedByCoord.out.bai => sample5.bai} | Bin ...gned.sortedByCoord.out.bam => sample5.bam} | Bin ...gned.sortedByCoord.out.bai => sample6.bai} | Bin ...gned.sortedByCoord.out.bam => sample6.bam} | Bin tools/umi_tools/dedup/test/test.nf | 24 +++++++++--------- 13 files changed, 12 insertions(+), 12 deletions(-) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bai => sample1.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bam => sample1.bam} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bai => sample2.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bam => sample2.bam} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bai => sample3.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bam => sample3.bam} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bai => sample4.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bam => sample4.bam} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bai => sample5.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bam => sample5.bam} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bai => sample6.bai} (100%) rename tools/umi_tools/dedup/test/input/{prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bam => sample6.bam} (100%) diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample1.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample1.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample1.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample1.bam diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample2.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample2.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample2.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample2.bam diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample3.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample3.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample3.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample3.bam diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample4.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample4.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample4.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample4.bam diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample5.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample5.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample5.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample5.bam diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bai b/tools/umi_tools/dedup/test/input/sample6.bai similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bai rename to tools/umi_tools/dedup/test/input/sample6.bai diff --git a/tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bam b/tools/umi_tools/dedup/test/input/sample6.bam similarity index 100% rename from tools/umi_tools/dedup/test/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bam rename to tools/umi_tools/dedup/test/input/sample6.bam diff --git a/tools/umi_tools/dedup/test/test.nf b/tools/umi_tools/dedup/test/test.nf index 5eb85f90..3534454c 100644 --- a/tools/umi_tools/dedup/test/test.nf +++ b/tools/umi_tools/dedup/test/test.nf @@ -16,21 +16,21 @@ include dedup from '../main.nf' --------------------------------------------------------------------------------------*/ testMetaDataBam = [ - ['Sample1', "$baseDir/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bam"], - ['Sample2', "$baseDir/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bam"], - ['Sample3', "$baseDir/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bam"], - ['Sample4', "$baseDir/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bam"], - ['Sample5', "$baseDir/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bam"], - ['Sample6', "$baseDir/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bam"] + ['Sample1', "$baseDir/input/sample1.bam"], + ['Sample2', "$baseDir/input/sample2.bam"], + ['Sample3', "$baseDir/input/sample3.bam"], + ['Sample4', "$baseDir/input/sample4.bam"], + ['Sample5', "$baseDir/input/sample5.bam"], + ['Sample6', "$baseDir/input/sample6.bam"] ] testMetaDataBai = [ - ['Sample1', "$baseDir/input/prpf8_ctrl_rep1.Aligned.sortedByCoord.out.bai"], - ['Sample2', "$baseDir/input/prpf8_ctrl_rep2.Aligned.sortedByCoord.out.bai"], - ['Sample3', "$baseDir/input/prpf8_ctrl_rep4.Aligned.sortedByCoord.out.bai"], - ['Sample4', "$baseDir/input/prpf8_eif4a3_rep1.Aligned.sortedByCoord.out.bai"], - ['Sample5', "$baseDir/input/prpf8_eif4a3_rep2.Aligned.sortedByCoord.out.bai"], - ['Sample6', "$baseDir/input/prpf8_eif4a3_rep4.Aligned.sortedByCoord.out.bai"] + ['Sample1', "$baseDir/input/sample1.bai"], + ['Sample2', "$baseDir/input/sample2.bai"], + ['Sample3', "$baseDir/input/sample3.bai"], + ['Sample4', "$baseDir/input/sample4.bai"], + ['Sample5', "$baseDir/input/sample5.bai"], + ['Sample6', "$baseDir/input/sample6.bai"] ] // Create channels of test data