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| author | AndreaGuarracino | 2020-11-12 18:50:13 +0100 |
|---|---|---|
| committer | AndreaGuarracino | 2020-11-12 18:50:13 +0100 |
| commit | dbd32a3042099d52d30028364ffdadcd0f60ede2 (patch) | |
| tree | 3d482ffb952c14e34afc063298ab5dcde066b32f /scripts/create_sra_metadata | |
| parent | 87440554e57d5c5ed846e98a3b3ec428330e15e8 (diff) | |
| download | bh20-seq-resource-dbd32a3042099d52d30028364ffdadcd0f60ede2.tar.gz bh20-seq-resource-dbd32a3042099d52d30028364ffdadcd0f60ede2.tar.lz bh20-seq-resource-dbd32a3042099d52d30028364ffdadcd0f60ede2.zip | |
managed the assembly_method in the scripts, doc, and the example templates
Diffstat (limited to 'scripts/create_sra_metadata')
| -rw-r--r-- | scripts/create_sra_metadata/create_sra_metadata.py | 2 |
1 files changed, 2 insertions, 0 deletions
diff --git a/scripts/create_sra_metadata/create_sra_metadata.py b/scripts/create_sra_metadata/create_sra_metadata.py index 2aac0e5..554aea3 100644 --- a/scripts/create_sra_metadata/create_sra_metadata.py +++ b/scripts/create_sra_metadata/create_sra_metadata.py @@ -227,6 +227,8 @@ for i, EXPERIMENT_PACKAGE in enumerate(EXPERIMENT_PACKAGE_SET): taxon_id = SAMPLE.find('SAMPLE_NAME').find('TAXON_ID').text info_for_yaml_dict['virus']['virus_species'] = "http://purl.obolibrary.org/obo/NCBITaxon_"+taxon_id + # This script download and prepare data and metadata for samples that will be mapepd againg a referenceT + info_for_yaml_dict['technology']['assembly_method'] = 'http://purl.obolibrary.org/obo/GENEPIO_0002028' EXPERIMENT = EXPERIMENT_PACKAGE.find('EXPERIMENT') INSTRUMENT_MODEL = [x.text for x in EXPERIMENT.find('PLATFORM').iter('INSTRUMENT_MODEL')][0] |