Mercurial > repos > gga > apollo_export
changeset 15:b503fe85f261 draft
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 7f742b16e6e4c33b9abdb633405298e05760c84b"
| author | gga |
|---|---|
| date | Tue, 08 Jun 2021 09:16:01 +0000 |
| parents | 0d4234488bd0 |
| children | c3251541cf2b |
| files | json2iframe.py macros.xml test-data/create_org/output.json test-data/create_org/output2.json |
| diffstat | 4 files changed, 13 insertions(+), 6 deletions(-) [+] |
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--- a/json2iframe.py Wed Aug 19 06:55:33 2020 -0400 +++ b/json2iframe.py Tue Jun 08 09:16:01 2021 +0000 @@ -22,7 +22,7 @@ <html> <head> <title>Embedded Apollo Access</title> - <style type="text/css">body {{margin: 0;}} iframe {{border: 0;width: 100%;height: 100%}}</style> + <style type="text/css">body {{margin: 0;}} iframe {{border: 0;width: 100%;height: 100vh}}</style> </head> <body> <iframe src="{base_url}/annotator/loadLink?loc={chrom}&organism={orgId}{tracklist}"></iframe> @@ -30,4 +30,7 @@ </html> """ - print(HTML_TPL.format(base_url=args.external_apollo_url, chrom="", orgId=data[0]['id'], tracklist='&tracklist=1' if args.tracklist else '')) + if isinstance(data, list): + print(HTML_TPL.format(base_url=args.external_apollo_url, chrom="", orgId=data[0]['id'], tracklist='&tracklist=1' if args.tracklist else '')) + else: + print(HTML_TPL.format(base_url=args.external_apollo_url, chrom="", orgId=data['id'], tracklist='&tracklist=1' if args.tracklist else ''))
--- a/macros.xml Wed Aug 19 06:55:33 2020 -0400 +++ b/macros.xml Tue Jun 08 09:16:01 2021 +0000 @@ -1,10 +1,10 @@ <?xml version="1.0"?> <macros> - <token name="@WRAPPER_VERSION@">4.2.5</token> + <token name="@WRAPPER_VERSION@">4.2.13</token> <xml name="requirements"> <requirements> - <requirement type="package" version="4.2.5">apollo</requirement> + <requirement type="package" version="4.2.13">apollo</requirement> <yield/> </requirements> </xml>
--- a/test-data/create_org/output.json Wed Aug 19 06:55:33 2020 -0400 +++ b/test-data/create_org/output.json Tue Jun 08 09:16:01 2021 +0000 @@ -9,8 +9,10 @@ "directory": "/XX/apollo_shared_dir/1", "publicMode": false, "valid": true, + "genomeFastaIndex": "seq/genome.fasta.fai", "genus": "genus", "species": null, "id": "xx", - "nonDefaultTranslationTable": null + "nonDefaultTranslationTable": null, + "genomeFasta": "seq/genome.fasta" }
--- a/test-data/create_org/output2.json Wed Aug 19 06:55:33 2020 -0400 +++ b/test-data/create_org/output2.json Tue Jun 08 09:16:01 2021 +0000 @@ -9,8 +9,10 @@ "directory": "/XX/apollo_shared_dir/3", "publicMode": false, "valid": true, + "genomeFastaIndex": "seq/genome.fasta.fai", "genus": "genus2", "species": "sp", "id": "xx", - "nonDefaultTranslationTable": null + "nonDefaultTranslationTable": null, + "genomeFasta": "seq/genome.fasta" }