Mercurial > repos > sanbi-uwc > data_manager_shapeit_reference
changeset 6:6b54dcb42cd5 draft
planemo upload for repository https://github.com/pvanheus/data_manager_shapeit_reference commit c9772b96ea77a4daac91b5fc87643972a1d71eda-dirty
author | sanbi-uwc |
---|---|
date | Mon, 17 Sep 2018 06:04:44 -0400 |
parents | f0c7cab2f547 |
children | 78ec8f452966 |
files | data_manager/shapeit_ref.xml test-data/sample.out tool-data/shapeit_ref.loc.sample |
diffstat | 3 files changed, 5 insertions(+), 5 deletions(-) [+] |
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--- a/data_manager/shapeit_ref.xml Sat Sep 15 03:20:01 2018 -0400 +++ b/data_manager/shapeit_ref.xml Mon Sep 17 06:04:44 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="shapeit_reference_manager" name="SHAPEIT reference data path manager" tool_type="manage_data" version="0.0.6"> +<tool id="shapeit_reference_manager" name="SHAPEIT reference data path manager" tool_type="manage_data" version="0.0.7"> <command detect_errors="exit_code"><![CDATA[ python $__tool_directory__/shapeit_ref.py '${value}' @@ -31,4 +31,4 @@ <citations> <citation type="doi">10.1038/nmeth.1785</citation> </citations> -</tool> \ No newline at end of file +</tool>
--- a/test-data/sample.out Sat Sep 15 03:20:01 2018 -0400 +++ b/test-data/sample.out Mon Sep 17 06:04:44 2018 -0400 @@ -1,1 +1,1 @@ -{"data_tables": {"shapeit_ref": [{"name": "1000 Genomes Project (phase 3) haplotypes (http://mathgen.stats.ox.ac.uk/impute/1000GPX20Phase3.html)", "value": "1000GP_Phase3", "map_prefix": "genetic_map_", "path": "/tools/databases/1000G/1000GP_Phase3", "reference_prefix": "1000GP_Phase3_"}]}} +{"data_tables": {"shapeit_ref": [{"name": "1000 Genomes Project (phase 3) haplotypes (http://mathgen.stats.ox.ac.uk/impute/1000GPX20Phase3.html)", "value": "1000GP_Phase3", "map_prefix": "genetic_map_chr", "path": "/tools/databases/1000G/1000GP_Phase3", "reference_prefix": "1000GP_Phase3_chr", "sample_prefix": "1000GP_Phase3"}]}}
--- a/tool-data/shapeit_ref.loc.sample Sat Sep 15 03:20:01 2018 -0400 +++ b/tool-data/shapeit_ref.loc.sample Mon Sep 17 06:04:44 2018 -0400 @@ -1,7 +1,7 @@ #This file lists the locations of SHAPEIT reference data connections # -#<value> <description> <path> <reference_file_prefix> <map_file_prefix> <sample_file_prefix> +#<value> <description> <path> <reference_file_prefix> <map_file_prefix> <sample_file_prefix> # #For example # -#1000G_Phase3 1000 Genomes project haplotypes /path/to/shapeit_ref/1000G 1000GP_Phase3_chr genetic_map_chr 1000GP_Phase3 +#1000G_Phase3 1000 Genomes project haplotypes /path/to/shapeit_ref/1000G 1000GP_Phase3_chr genetic_map_chr 1000GP_Phase3