Mercurial > repos > fubar > jbrowse2
comparison autogenJB2.py @ 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 | cefe9dbf1d80 |
| children | e26a8a6d2d2e |
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| 68:c4eb6a85db70 | 69:7230a2422507 |
|---|---|
| 202 jc.add_general_configuration({}) | 202 jc.add_general_configuration({}) |
| 203 trackconf = jc.config_json.get("tracks", []) | 203 trackconf = jc.config_json.get("tracks", []) |
| 204 for gnome in jc.genome_names: | 204 for gnome in jc.genome_names: |
| 205 trackconf += jc.tracksToAdd[gnome] | 205 trackconf += jc.tracksToAdd[gnome] |
| 206 logging.warn( | 206 logging.warn( |
| 207 "^^%% adding trackconf=%s for gnome %s" % (trackconf, gnome) | 207 "++++ adding trackconf=%s for gnome %s" % (trackconf, gnome) |
| 208 ) | 208 ) |
| 209 jc.config_json["tracks"] = trackconf | 209 jc.config_json["tracks"] = trackconf |
| 210 assconf = jc.config_json.get("assemblies", []) | |
| 211 assconf += jc.assemblies | |
| 212 jc.config_json["assemblies"] = assconf | |
| 213 logging.warn("+++assemblies=%s, gnames=%s" % (assconf, jc.genome_names)) | |
| 210 jc.write_config() | 214 jc.write_config() |
| 211 default_session_data.update({"session_name": sessName}) | 215 default_session_data.update({"session_name": sessName}) |
| 212 track_conf.update(default_session_data) | 216 track_conf.update(default_session_data) |
| 213 jc.add_default_session(default_session_data) | 217 jc.add_default_session(default_session_data) |
| 214 # jc.text_index() not sure what broke here. | 218 # jc.text_index() not sure what broke here. |