Mercurial > repos > fubar > jbrowse2
changeset 69:7230a2422507 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 2c7d6c19a42c421de987ebfdf927c64062ebd79f-dirty
| author | fubar |
|---|---|
| date | Fri, 29 Mar 2024 09:14:59 +0000 |
| parents | c4eb6a85db70 |
| children | 5f0ee87daef4 |
| files | autogenJB2.py jbrowse2.py |
| diffstat | 2 files changed, 7 insertions(+), 2 deletions(-) [+] |
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--- a/autogenJB2.py Fri Mar 29 07:27:20 2024 +0000 +++ b/autogenJB2.py Fri Mar 29 09:14:59 2024 +0000 @@ -204,9 +204,13 @@ for gnome in jc.genome_names: trackconf += jc.tracksToAdd[gnome] logging.warn( - "^^%% adding trackconf=%s for gnome %s" % (trackconf, gnome) + "++++ adding trackconf=%s for gnome %s" % (trackconf, gnome) ) jc.config_json["tracks"] = trackconf + assconf = jc.config_json.get("assemblies", []) + assconf += jc.assemblies + jc.config_json["assemblies"] = assconf + logging.warn("+++assemblies=%s, gnames=%s" % (assconf, jc.genome_names)) jc.write_config() default_session_data.update({"session_name": sessName}) track_conf.update(default_session_data)
--- a/jbrowse2.py Fri Mar 29 07:27:20 2024 +0000 +++ b/jbrowse2.py Fri Mar 29 09:14:59 2024 +0000 @@ -1607,13 +1607,14 @@ } jc.add_general_configuration(general_data) trackconf = jc.config_json.get("tracks", []) - logging.warn("genome_names=%s" % jc.genome_names) + logging.warn("%%%%%%%%% genome_names=%s" % jc.genome_names) for gnome in jc.genome_names: trackconf += jc.tracksToAdd[gnome] jc.config_json["tracks"] = trackconf assconf = jc.config_json.get("assemblies", []) assconf += jc.assemblies jc.config_json["assemblies"] = assconf + logging.warn("&&&assemblies=%s, gnames=%s" % (assconf, jc.genome_names)) jc.write_config() jc.add_default_session(default_session_data) # jc.text_index() not sure what broke here.