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More sorting fixes
1 parent 5497960 commit 6bf3f92

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4 files changed

+10
-10
lines changed

4 files changed

+10
-10
lines changed

tests/default.nf.test.snap

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -699,8 +699,6 @@
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"salmon/WT_REP2/logs/salmon_quant.log",
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"salmon/WT_REP2/quant.genes.sf",
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"salmon/WT_REP2/quant.sf",
702-
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
703-
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
704702
"salmon/deseq2_qc",
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"salmon/deseq2_qc/R_sessionInfo.log",
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"salmon/deseq2_qc/deseq2.dds.RData",
@@ -714,11 +712,13 @@
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"salmon/deseq2_qc/size_factors/WT_REP1.txt",
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"salmon/deseq2_qc/size_factors/WT_REP2.txt",
716714
"salmon/deseq2_qc/size_factors/deseq2.size_factors.RData",
715+
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
717716
"salmon/salmon.merged.gene_counts.tsv",
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"salmon/salmon.merged.gene_counts_length_scaled.tsv",
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"salmon/salmon.merged.gene_counts_scaled.tsv",
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"salmon/salmon.merged.gene_lengths.tsv",
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"salmon/salmon.merged.gene_tpm.tsv",
721+
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
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"salmon/salmon.merged.transcript_counts.tsv",
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"salmon/salmon.merged.transcript_lengths.tsv",
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"salmon/salmon.merged.transcript_tpm.tsv",

tests/featurecounts_group_type.nf.test.snap

Lines changed: 2 additions & 2 deletions
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@@ -686,8 +686,6 @@
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"salmon/WT_REP2/logs/salmon_quant.log",
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"salmon/WT_REP2/quant.genes.sf",
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"salmon/WT_REP2/quant.sf",
689-
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
690-
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
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"salmon/deseq2_qc",
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"salmon/deseq2_qc/R_sessionInfo.log",
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"salmon/deseq2_qc/deseq2.dds.RData",
@@ -701,11 +699,13 @@
701699
"salmon/deseq2_qc/size_factors/WT_REP1.txt",
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"salmon/deseq2_qc/size_factors/WT_REP2.txt",
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"salmon/deseq2_qc/size_factors/deseq2.size_factors.RData",
702+
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
704703
"salmon/salmon.merged.gene_counts.tsv",
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"salmon/salmon.merged.gene_counts_length_scaled.tsv",
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"salmon/salmon.merged.gene_counts_scaled.tsv",
707706
"salmon/salmon.merged.gene_lengths.tsv",
708707
"salmon/salmon.merged.gene_tpm.tsv",
708+
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
709709
"salmon/salmon.merged.transcript_counts.tsv",
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"salmon/salmon.merged.transcript_lengths.tsv",
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"salmon/salmon.merged.transcript_tpm.tsv",

tests/min_mapped_reads.nf.test.snap

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -602,8 +602,6 @@
602602
"salmon/WT_REP2/logs/salmon_quant.log",
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"salmon/WT_REP2/quant.genes.sf",
604604
"salmon/WT_REP2/quant.sf",
605-
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
606-
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
607605
"salmon/deseq2_qc",
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"salmon/deseq2_qc/R_sessionInfo.log",
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"salmon/deseq2_qc/deseq2.dds.RData",
@@ -617,11 +615,13 @@
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"salmon/deseq2_qc/size_factors/WT_REP1.txt",
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"salmon/deseq2_qc/size_factors/WT_REP2.txt",
619617
"salmon/deseq2_qc/size_factors/deseq2.size_factors.RData",
618+
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
620619
"salmon/salmon.merged.gene_counts.tsv",
621620
"salmon/salmon.merged.gene_counts_length_scaled.tsv",
622621
"salmon/salmon.merged.gene_counts_scaled.tsv",
623622
"salmon/salmon.merged.gene_lengths.tsv",
624623
"salmon/salmon.merged.gene_tpm.tsv",
624+
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
625625
"salmon/salmon.merged.transcript_counts.tsv",
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"salmon/salmon.merged.transcript_lengths.tsv",
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"salmon/salmon.merged.transcript_tpm.tsv",

tests/umi.nf.test.snap

Lines changed: 4 additions & 4 deletions
Original file line numberDiff line numberDiff line change
@@ -591,8 +591,6 @@
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"salmon/WT_REP2/logs/salmon_quant.log",
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"salmon/WT_REP2/quant.genes.sf",
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"salmon/WT_REP2/quant.sf",
594-
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
595-
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
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"salmon/deseq2_qc",
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"salmon/deseq2_qc/R_sessionInfo.log",
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"salmon/deseq2_qc/deseq2.dds.RData",
@@ -606,11 +604,13 @@
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"salmon/deseq2_qc/size_factors/WT_REP1.txt",
607605
"salmon/deseq2_qc/size_factors/WT_REP2.txt",
608606
"salmon/deseq2_qc/size_factors/deseq2.size_factors.RData",
607+
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
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"salmon/salmon.merged.gene_counts.tsv",
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"salmon/salmon.merged.gene_counts_length_scaled.tsv",
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"salmon/salmon.merged.gene_counts_scaled.tsv",
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"salmon/salmon.merged.gene_lengths.tsv",
613612
"salmon/salmon.merged.gene_tpm.tsv",
613+
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
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"salmon/salmon.merged.transcript_counts.tsv",
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"salmon/salmon.merged.transcript_lengths.tsv",
616616
"salmon/salmon.merged.transcript_tpm.tsv",
@@ -2543,8 +2543,6 @@
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"salmon/WT_REP2/logs/salmon_quant.log",
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"salmon/WT_REP2/quant.genes.sf",
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"salmon/WT_REP2/quant.sf",
2546-
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
2547-
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
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"salmon/deseq2_qc",
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"salmon/deseq2_qc/R_sessionInfo.log",
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"salmon/deseq2_qc/deseq2.dds.RData",
@@ -2558,11 +2556,13 @@
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"salmon/deseq2_qc/size_factors/WT_REP1.txt",
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"salmon/deseq2_qc/size_factors/WT_REP2.txt",
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"salmon/deseq2_qc/size_factors/deseq2.size_factors.RData",
2559+
"salmon/salmon.merged.gene.SummarizedExperiment.rds",
25612560
"salmon/salmon.merged.gene_counts.tsv",
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"salmon/salmon.merged.gene_counts_length_scaled.tsv",
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"salmon/salmon.merged.gene_counts_scaled.tsv",
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"salmon/salmon.merged.gene_lengths.tsv",
25652564
"salmon/salmon.merged.gene_tpm.tsv",
2565+
"salmon/salmon.merged.transcript.SummarizedExperiment.rds",
25662566
"salmon/salmon.merged.transcript_counts.tsv",
25672567
"salmon/salmon.merged.transcript_lengths.tsv",
25682568
"salmon/salmon.merged.transcript_tpm.tsv",

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