Mercurial > repos > devteam > data_manager_sam_fasta_index_builder
changeset 9:54cf06b7c307 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_sam_fasta_index_builder commit 20381ede5940c6bbca00b550e01550f5aad0f2b7"
| author | iuc |
|---|---|
| date | Mon, 01 Nov 2021 08:31:44 +0000 |
| parents | 28d50a439ffe |
| children | 6af5a435d20d |
| files | data_manager/data_manager_sam_fasta_index_builder.py data_manager/data_manager_sam_fasta_index_builder.xml |
| diffstat | 2 files changed, 6 insertions(+), 4 deletions(-) [+] |
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--- a/data_manager/data_manager_sam_fasta_index_builder.py Thu Nov 28 20:31:54 2019 +0000 +++ b/data_manager/data_manager_sam_fasta_index_builder.py Mon Nov 01 08:31:44 2021 +0000 @@ -71,7 +71,8 @@ filename = args[0] - params = json.loads(open(filename).read()) + with open(filename) as fh: + params = json.load(fh) target_directory = params['output_data'][0]['extra_files_path'] os.mkdir(target_directory) data_manager_dict = {} @@ -93,7 +94,8 @@ ) # save info to json file - open(filename, 'w').write(json.dumps(data_manager_dict, sort_keys=True)) + with open(filename, 'w') as fh: + json.dump(data_manager_dict, fh, sort_keys=True) if __name__ == "__main__":
--- a/data_manager/data_manager_sam_fasta_index_builder.xml Thu Nov 28 20:31:54 2019 +0000 +++ b/data_manager/data_manager_sam_fasta_index_builder.xml Mon Nov 01 08:31:44 2021 +0000 @@ -1,7 +1,7 @@ -<tool id="sam_fasta_index_builder" name="SAM FASTA index" tool_type="manage_data" version="0.0.4" profile="19.05"> +<tool id="sam_fasta_index_builder" name="SAM FASTA index" tool_type="manage_data" version="0.0.5" profile="19.05"> <description>builder</description> <requirements> - <requirement type="package" version="1.9">samtools</requirement> + <requirement type="package" version="1.14">samtools</requirement> <requirement type="package" version="3.7">python</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[