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missing pseudochr.fasta.gz for Leishmania in Public server (is Companion still supported) #103

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ghost opened this issue Jun 15, 2021 · 0 comments

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@ghost
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ghost commented Jun 15, 2021

Dear Companion team,

I would like to use your public server for annotating some assemblies from leishmania that I have generated. However, it seems to me that the server does not actually contain the training sets mentioned in the webpage list. I have use a Leishmania mexicana downloaded from NCBI and the job fails, despite a lot testing of trial and error. The error obtained is the below. I have emailed the contact address given in the website but no one replies. Is it still supported? I appreciate your input.

/www/companion/annot-web/app/workers/hard_worker.rb:34:in add_result_file': required file not present: /www/companion/annot-web/public/jobs/74f8275b60bbaeba61562e29/pseudochr.fasta.gz (RuntimeError) /www/companion/annot-web/app/workers/hard_worker.rb:142:in perform'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:150:in execute_job' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:132:in block (2 levels) in process'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:127:in block in invoke' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-status-0.6.0/lib/sidekiq-status/server_middleware.rb:37:in call'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:129:in block in invoke' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/server/active_record.rb:6:in call'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:129:in block in invoke' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/server/retry_jobs.rb:74:in call'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:129:in block in invoke' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/server/logging.rb:11:in block in call'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/logging.rb:30:in with_context' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/server/logging.rb:7:in call'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:129:in block in invoke' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/middleware/chain.rb:132:in invoke'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:127:in block in process' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:166:in stats'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:126:in process' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:79:in process_one'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/processor.rb:67:in run' /www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/util.rb:16:in watchdog'
/www/companion/annot-web/vendor/ruby/2.3.0/gems/sidekiq-4.0.2/lib/sidekiq/util.rb:24:in `block in safe_thread'

Many thanks,
Ivan

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