Mercurial > repos > fubar > jbrowse2
comparison autogenJB2.py @ 84:5c295cc220ed draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 2dad2139324940fbff8aa089a72641800211e2d9-dirty
| author | fubar |
|---|---|
| date | Wed, 03 Apr 2024 02:56:39 +0000 |
| parents | 3dcda36b97b4 |
| children | 3b2ff9864995 |
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| 83:746eae952c18 | 84:5c295cc220ed |
|---|---|
| 218 jc.config_json["assemblies"] = assconf | 218 jc.config_json["assemblies"] = assconf |
| 219 logging.debug("+++assemblies=%s, gnames=%s" % (assconf, jc.genome_names)) | 219 logging.debug("+++assemblies=%s, gnames=%s" % (assconf, jc.genome_names)) |
| 220 jc.write_config() | 220 jc.write_config() |
| 221 default_session_data.update({"session_name": sessName}) | 221 default_session_data.update({"session_name": sessName}) |
| 222 track_conf.update(default_session_data) | 222 track_conf.update(default_session_data) |
| 223 # jc.add_default_session(default_session_data) | 223 jc.add_default_session(default_session_data) |
| 224 jc.add_defsess_to_index(default_session_data) | 224 # jc.add_defsess_to_index(default_session_data) |
| 225 # jc.text_index() not sure what broke here. | 225 # jc.text_index() not sure what broke here. |
| 226 else: | 226 else: |
| 227 sys.stderr.write( | 227 sys.stderr.write( |
| 228 "!!!! Collection has no suitable trackfiles for autogenJB2 - nothing to process" | 228 "!!!! Collection has no suitable trackfiles for autogenJB2 - nothing to process" |
| 229 ) | 229 ) |