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I am using Interproscan . i get these errors

i am using this command

./interproscan.sh java -i /media/bioinfo14/a43692d0-92fd-4743-9947-ae3eb2ee0d80/triticina/Triticina_EffectorP.fa -t p -pa -f tsv -goterms -o /media/bioinfo14/a43692d0-92fd-4743-9947-ae3eb2ee0d80/triticina/interpro_result

after 25% completion. i got this error

select stepexecut0_.id as id1_90_0_, stepexecut0_.time_completed as time_com2_90_0_, stepexecut0_.time_created as time_cre3_90_0_, stepexecut0_.exception_first_chunk as exceptio4_90_0_, stepexecut0_.proportion_completed as proporti5_90_0_, stepexecut0_.time_started_running as time_sta6_90_0_, stepexecut0_.state as state7_90_0_, stepexecut0_.step_instance_id as step_ins9_90_0_, stepexecut0_.time_submitted as time_sub8_90_0_, exceptionc1_.step_execution_id as step_exe1_12_1_, exceptionc1_.exception_chunks as exceptio2_12_1_, exceptionc1_.chunk_index as chunk_in3_1_, stepinstan2_.id as id1_91_2_, stepinstan2_.bottom_model as bottom_m2_91_2_, stepinstan2_.bottom_protein as bottom_p3_91_2_, stepinstan2_.step_id as step_id4_91_2_, stepinstan2_.time_created as time_cre5_91_2_, stepinstan2_.top_model as top_mode6_91_2_, stepinstan2_.top_protein as top_prot7_91_2_, dependsupo3_.step_instance_id as step_ins1_93_3_, stepinstan4_.id as depends_2_93_3_, stepinstan4_.id as id1_91_4_, stepinstan4_.bottom_model as bottom_m2_91_4_, stepinstan4_.bottom_protein as bottom_p3_91_4_, stepinstan4_.step_id as step_id4_91_4_, stepinstan4_.time_created as time_cre5_91_4_, stepinstan4_.top_model as top_mode6_91_4_, stepinstan4_.top_protein as top_prot7_91_4_, parameters5_.step_instance_id as step_ins1_92_5_, parameters5_.parameters as paramete2_92_5_, parameters5_.parameters_key as paramete3_5_ from public.step_execution stepexecut0_ left outer join public.exception_chunk exceptionc1_ on stepexecut0_.id=exceptionc1_.step_execution_id inner join public.step_instance stepinstan2_ on stepexecut0_.step_instance_id=stepinstan2_.id left outer join public.step_instance_step_instance dependsupo3_ on stepinstan2_.id=dependsupo3_.step_instance_id left outer join public.step_instance stepinstan4_ on dependsupo3_.depends_upon_id=stepinstan4_.id left outer join public.step_instance_parameters parameters5_ on stepinstan4_.id=parameters5_.step_instance_id where stepexecut0_.id=? [42102-189]
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
rna-seq next-gen sequencing assembly

It says "Check the log file for details".

IF you can't find the logs, do

find . -name "*.log"

That should get you started

Upvoted and moved to a comment, since it doesn't answer OPs question (but indeed points OP potentially in the right direction).

1 answer

No need to add java in that comdline. correct syntax is:

./interproscan.sh -i /media/bioinfo14/a43692d0-92fd-4743-9947-ae3eb2ee0d80/triticina/Triticina_EffectorP.fa -t p -pa -f tsv -goterms -o /media/bioinfo14/a43692d0-92fd-4743-9947-ae3eb2ee0d80/triticina/interpro_result

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