[Iplant-api-dev] Interproscan

Thu May 28 13:50:11 MST 2015

Does anyone know if Interproscan is supposed to be working? I have tested it twice and got an error both times. e.g.:

{
  "status" : "success",
  "message" : null,
  "version" : "2.1.0-r6d11c",
  "result" : { }
}splitfasta.pl -f blattrinity_pep.fa -o split_fasta -n 1000
splitfasta DONE
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
/opt/apps/launcher/launcher-2.0/paramrun: line 136: [: -ne: unary operator expected
Warning: Permanently added 'c429-702,129.114.70.134' (RSA) to the list of known hosts.
Warning: Permanently added 'c435-202,129.114.71.100' (RSA) to the list of known hosts.
Warning: Permanently added 'c432-904,129.114.71.10' (RSA) to the list of known hosts.
Warning: Permanently added 'c429-302,129.114.70.118' (RSA) to the list of known hosts.
Warning: Permanently added 'c429-303,129.114.70.119' (RSA) to the list of known hosts.
Warning: Permanently added 'c434-902,129.114.71.88' (RSA) to the list of known hosts.
Warning: Permanently added 'c433-104,129.114.71.18' (RSA) to the list of known hosts.
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
/opt/apps/launcher/launcher-2.0/init_launcher: line 23: [: : integer expression expected
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m24.813s
user 0m37.986s
sys 0m1.183s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m27.281s
user 0m45.708s
sys 0m1.092s

real 0m28.019s
user 0m45.755s
sys 0m1.106s

real 0m27.228s
user 0m45.858s
sys 0m1.127s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m27.372s
user 0m46.114s
sys 0m1.078s

real 0m27.399s
user 0m45.975s
sys 0m1.107s

real 0m27.420s
user 0m46.055s
sys 0m1.144s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m27.501s
user 0m46.408s
sys 0m1.074s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m27.634s
user 0m46.559s
sys 0m1.153s

real 0m27.464s
user 0m46.838s
sys 0m1.072s

real 0m27.491s
user 0m46.785s
sys 0m1.178s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m27.754s
user 0m47.394s
sys 0m1.125s

real 0m27.866s
user 0m47.569s
sys 0m1.180s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m28.164s
user 0m47.645s
sys 0m1.141s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m28.981s
user 0m48.554s
sys 0m1.105s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m28.271s
user 0m48.739s
sys 0m1.182s
InterProScan analysis failed. Exception thrown by StandaloneBlackBoxMaster. Check the log file for details

real 0m19.866s
user 0m45.780s
sys 0m0.996s

real 0m51.123s
user 0m0.450s
sys 0m0.139s
egrep: output/seqfile.8.xml: No such file or directory
cat: output/seqfile.8.tsv: No such file or directory
cat: output/seqfile.8.gff3: No such file or directory
egrep: output/seqfile.6.xml: No such file or directory
cat: output/seqfile.6.tsv: No such file or directory
cat: output/seqfile.6.gff3: No such file or directory
egrep: output/seqfile.7.xml: No such file or directory
cat: output/seqfile.7.tsv: No such file or directory
cat: output/seqfile.7.gff3: No such file or directory
egrep: output/seqfile.10.xml: No such file or directory
cat: output/seqfile.10.tsv: No such file or directory
cat: output/seqfile.10.gff3: No such file or directory
egrep: output/seqfile.4.xml: No such file or directory
cat: output/seqfile.4.tsv: No such file or directory
cat: output/seqfile.4.gff3: No such file or directory
egrep: output/seqfile.11.xml: No such file or directory
cat: output/seqfile.11.tsv: No such file or directory
cat: output/seqfile.11.gff3: No such file or directory
egrep: output/seqfile.13.xml: No such file or directory
cat: output/seqfile.13.tsv: No such file or directory
cat: output/seqfile.13.gff3: No such file or directory
egrep: output/seqfile.15.xml: No such file or directory
cat: output/seqfile.15.tsv: No such file or directory
cat: output/seqfile.15.gff3: No such file or directory
egrep: output/seqfile.14.xml: No such file or directory
cat: output/seqfile.14.tsv: No such file or directory
cat: output/seqfile.14.gff3: No such file or directory
egrep: output/seqfile.16.xml: No such file or directory
cat: output/seqfile.16.tsv: No such file or directory
cat: output/seqfile.16.gff3: No such file or directory
egrep: output/seqfile.2.xml: No such file or directory
cat: output/seqfile.2.tsv: No such file or directory
cat: output/seqfile.2.gff3: No such file or directory
egrep: output/seqfile.9.xml: No such file or directory
cat: output/seqfile.9.tsv: No such file or directory
cat: output/seqfile.9.gff3: No such file or directory
egrep: output/seqfile.1.xml: No such file or directory
cat: output/seqfile.1.tsv: No such file or directory
cat: output/seqfile.1.gff3: No such file or directory
egrep: output/seqfile.5.xml: No such file or directory
cat: output/seqfile.5.tsv: No such file or directory
cat: output/seqfile.5.gff3: No such file or directory
egrep: output/seqfile.3.xml: No such file or directory
cat: output/seqfile.3.tsv: No such file or directory
cat: output/seqfile.3.gff3: No such file or directory
egrep: output/seqfile.12.xml: No such file or directory
cat: output/seqfile.12.tsv: No such file or directory
cat: output/seqfile.12.gff3: No such file or directory
egrep: output/seqfile.0.xml: No such file or directory
cat: output/seqfile.0.tsv: No such file or directory
cat: output/seqfile.0.gff3: No such file or directory
{
  "status" : "success",
  "message" : null,
  "version" : "2.1.0-r6d11c",
  "result" : { }
}

Roger

--
Roger Barthelson Ph.D.
Scientific Analyst
iPlant Collaborative
BIO5 Institute, University of Arizona
Phone: 520-977-5249
Email: rogerab at email.arizona.edu<mailto:rogerab at email.arizona.edu>
Web: www.iplantcollaborative.org/<http://www.iplantcollaborative.org/>
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