Mercurial > repos > greg > gene_family_classifier
changeset 74:9969b17ae656 draft
Uploaded
| author | greg |
|---|---|
| date | Mon, 20 Feb 2017 10:56:01 -0500 |
| parents | 6e859426c873 |
| children | b7a45b06e735 |
| files | gene_family_classifier.xml |
| diffstat | 1 files changed, 2 insertions(+), 5 deletions(-) [+] |
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--- a/gene_family_classifier.xml Fri Feb 17 14:00:43 2017 -0500 +++ b/gene_family_classifier.xml Mon Feb 20 10:56:01 2017 -0500 @@ -118,14 +118,14 @@ && echo -e "#Size\tName" > $output_ptortho && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptortho #end if - && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir + && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true #end if #if $single_copy_orthogroup: #if $create_ortho_sequences: && echo -e "#Size\tName" > $output_ptsco && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptsco - && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir + && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true #end if #end if ]]> @@ -256,8 +256,6 @@ </collection> </outputs> <tests> - <!-- Not sure how to test this since the tool requires scaffolds data which is extremely large and installed using a Data Manager --> - <!-- <test> <param name="input" value="transcripts.cleaned.nr.pep" ftype="fasta" /> <param name="scaffold" value="22Gv1.1"/> @@ -271,7 +269,6 @@ <element name="proteins.blastp.22Gv1.1.bestOrthos.summary" file="proteins.blastp.22Gv1.1.bestOrthos.summary" ftype="tabular"/> </output_collection> </test> - --> </tests> <help> This tool is one of the PlantTribes' collection of automated modular analysis pipelines that utilize objective classifications of