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Created with Raphaël 2.2.024Aug2398432128Jul26251928Jun9732131May241026Apr2514127531Mar2228Feb17151498327Jan2630Nov254318Oct149Sep726Aug25241930Jul29262322330Jun28108432131May3028272524212019181716151412111087654330Apr2721201514131282129Mar252322191811109122Feb1918161154229Jan28211918test: Update input for orthologyfix: Template var namernaseq-jbrowse-…rnaseq-jbrowse-tracksfix: Match constants, template vars and render vars names and valuesrefactor: Store job files in organisms dirrefactor: Update constants and remove unused varsfeat: Add display name and unique ID to RNAseq tracks workflowfix: Remove unused vars in templatingfix: Exit when file cannot be uploaded to historyfix: Get lib folders dict from parent class methodfeat: Add step to add organisms to jbrowse container in workflow (add rnaseq tracks)factorize install_individual_tools methoddev dev_2022110…dev dev_20221102_before_rebaserename classhomogenize hda_id default valu with other gga_run_wf scriptsremove api_key from RunWorkflowAddTrackToJbrowse class initRemove unused constants. Factorize code from gga_run_wf scripts (add methods get_library_folders_id_dict, add_dataset_from_library). Script gga_run_wf_add_rnaseq: get api_key from config ; use methods set_galaxy_instance and set_history ; move planemo template to templates dir ; create a dedicated dir for planemo jobs yml files ; get workflow file from constants ; update wf.ga with bam track custom configs (v2)test: Use utilities method to get historyfix: Add identifiersfix: Use galaxy_id in jobfilefix: Init hda id in tracks dictstest: Get lib id with new methodfix: get_libraries methodtest: Use hda ids to find trackstest: Upload trackstest: Update workflow to use hda ids, upload the tracks to history, add params to template input fileMerge branch 'dev' into rnaseq-jbrowse-tracksfix picture permissionMerge branch 'fixes' into 'dev'Fix analysis name because used to order analyses on home pageMove analysis program version, sourcename and date for genome and ogs into input org.ymlMove analysis program version, sourcename and date for genome and ogs into input org.ymlUpdate analysis program version and sourcename. Update .ga with uniprot db.Custom analysisprogram for each analysis (in wf.py)Change param project_url to database. Move to description in org.ymlMerge branch 'add_blastp_interpro_wf' into 'dev'adjust wf constantsAdd .ga for 2orgAdd .garemove unused .ga. Add run_wf_blastp_interpro (no blastx)fix get_organism()back to default mode