# HG changeset patch # User gga # Date 1623143568 0 # Node ID 8585783deb07d9cfa6f66792cf3412d75cb8dccd # Parent f4e3f94803073d35951799ad7ad571a6123a7879 "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 7f742b16e6e4c33b9abdb633405298e05760c84b" diff -r f4e3f9480307 -r 8585783deb07 json2iframe.py --- a/json2iframe.py Wed Aug 19 06:54:37 2020 -0400 +++ b/json2iframe.py Tue Jun 08 09:12:48 2021 +0000 @@ -22,7 +22,7 @@ Embedded Apollo Access - + @@ -30,4 +30,7 @@ """ - 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 '')) diff -r f4e3f9480307 -r 8585783deb07 macros.xml --- a/macros.xml Wed Aug 19 06:54:37 2020 -0400 +++ b/macros.xml Tue Jun 08 09:12:48 2021 +0000 @@ -1,10 +1,10 @@ - 4.2.5 + 4.2.13 - apollo + apollo diff -r f4e3f9480307 -r 8585783deb07 test-data/create_org/output.json --- a/test-data/create_org/output.json Wed Aug 19 06:54:37 2020 -0400 +++ b/test-data/create_org/output.json Tue Jun 08 09:12:48 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" } diff -r f4e3f9480307 -r 8585783deb07 test-data/create_org/output2.json --- a/test-data/create_org/output2.json Wed Aug 19 06:54:37 2020 -0400 +++ b/test-data/create_org/output2.json Tue Jun 08 09:12:48 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" }