Mercurial > repos > proteore > proteore_maps_visualization
changeset 9:9ac0ade20b3f draft
"planemo upload commit ba867b8fa3352695fbda1ae764407f363ee79a50-dirty"
| author | proteore |
|---|---|
| date | Wed, 08 Jan 2020 09:03:41 +0000 |
| parents | ab697ebe0f41 |
| children | a4db9efe1e43 |
| files | kegg_maps_visualization.R kegg_maps_visualization.xml |
| diffstat | 2 files changed, 2 insertions(+), 2 deletions(-) [+] |
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--- a/kegg_maps_visualization.R Mon Jan 06 16:26:09 2020 +0000 +++ b/kegg_maps_visualization.R Wed Jan 08 09:03:41 2020 +0000 @@ -238,7 +238,7 @@ pathways_file = read_file(args$pathways_input,header2) ids <- sapply(rapply(strsplit(clean_bad_character(pathways_file[,pathway_col]),","),c), function(x) remove_kegg_prefix(x),USE.NAMES = FALSE) } - if (args$native_kegg) { ids <- ids[-grep("04215",ids)] } + if (args$native_kegg) { ids <- ids[ids != "04215"] } pathways_list <- read_file(args$pathways_list,F) if (!is.null(args$id_list)) { id_list <- get_list_from_cp(args$id_list)
--- a/kegg_maps_visualization.xml Mon Jan 06 16:26:09 2020 +0000 +++ b/kegg_maps_visualization.xml Wed Jan 08 09:03:41 2020 +0000 @@ -1,4 +1,4 @@ -<tool id="kegg_maps_visualization" name="Pathways visualization" version="2020.01.06"> +<tool id="kegg_maps_visualization" name="Pathways visualization" version="2020.01.08"> <description>of (differentially expressed) genes/proteins [KEGG]</description> <requirements> <requirement type="package" version="3.6.2" >R</requirement>