Merge pull request #2030 from ninaxiong11/genephylomodeler

ninaxiong11 · web-flow · commit 21d9e4346515 · 2026-04-29T15:45:14.000-04:00
Change sites to M0 in samplesheets
diff --git a/samplesheet/test_codeml_samplesheet.csv b/samplesheet/test_codeml_samplesheet.csv
@@ -1,2 +1,2 @@
 gene_name,alignment,tree,suite,tool,control_file
-Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-sites.ctl
+Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-M0.ctl
diff --git a/samplesheet/test_samplesheet.csv b/samplesheet/test_samplesheet.csv
@@ -9,4 +9,4 @@ KSR2,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephyl
 KSR2,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2.fna,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2.tree,hyphy,meme,
 KSR2,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2.fna,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2_labeled.tree,hyphy,relax,
 KSR2,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2.fna,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/ksr2.tree,hyphy,slac,
-Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-sites.ctl
+Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-M0.ctl

Original file line number	Diff line number	Diff line change
`@@ -1,2 +1,2 @@`
`1`	`1`	`gene_name,alignment,tree,suite,tool,control_file`
`2`		`-Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-sites.ctl`
	`2`	`+Mx,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_aln.phy,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/Mx_unroot.tree,paml,codeml,https://raw.githubusercontent.com/nf-core/test-datasets/refs/heads/genephylomodeler/data/codeml-M0.ctl`