[Iplant-api-dev] LMOD errors

[Duvick, Jonathan P [GDCBS]]

This was still broken for me on 5/25, including the lmod error message in .err file.


My test jobs today (5/28) with ' gth-stampede-1.6.5u2 ' are also failing (or more accurately, jobs complete without error status, but have zero output)-- HOWEVER the .err file has a different set of messages, related to ipcservices path error (see below)

Error File:

 gdb006-example-9-remote-hpc-protein-spliced-alignments-ii-0001432844500123-5056a550b8-0001-007.err

Contents:

{
  "status" : "success",
  "message" : null,
  "version" : "2.1.0-r6d11c",
  "result" : { }
}ERROR: resolveRodsTarget: srcPath /iplant/home/ipcservices/GDB006gdna.fa does not exist
ERROR: getUtil: resolveRodsTarget status = -317000 USER_INPUT_PATH_ERR
ERROR: resolveRodsTarget: srcPath /iplant/home/ipcservices/GDB006prot.fa does not exist
ERROR: getUtil: resolveRodsTarget status = -317000 USER_INPUT_PATH_ERR
ERROR: resolveRodsTarget: srcPath /iplant/home/ipcservices/gth.lic does not exist
ERROR: getUtil: resolveRodsTarget status = -317000 USER_INPUT_PATH_ERR

Usage: bin/fastasplit.pl -i fastafile -s psize [-n npieces] [-o outputdir]


** This script splits the input FASTA file fastafile into multiple pieces
   fastafile1, fastafile2, ... .  How many piecess are generated depends on the
   arguments of either the -s option (each piece is at most psize MB) or the
   -n option (npieces files will be generated).

   The original fastafile remains untouched.

   If an output directory is specified with the -o option, then the pieces
   will be written to the speciefied directory.

Warning: Permanently added 'c408-802,129.114.67.60' (RSA) to the list of known hosts.
cat: cat: launcher.paramlistlauncher.paramlistcat: launcher.paramlistcat: launcher.paramlist: No such file or directory
: No such file or directory
: No such file or directory
: No such file or directory
cat: launcher.paramlistcat: launcher.paramlistcat: launcher.paramlist: No such file or directory
: No such file or directory
: No such file or directory
cat: launcher.paramlist: No such file or directory
cat: launcher.paramlist: No such file or directory
cat: launcher.paramlist: No such file or directory
cat: launcher.paramlist: No such file or directory
cat: launcher.paramlistcat: : No such file or directory
launcher.paramlistcat: : No such file or directory
cat: launcher.paramlistlauncher.paramlist: No such file or directory
: No such file or directorycat: launcher.paramlist
: No such file or directory
{
  "status" : "success",
  "message" : null,
  "version" : "2.1.0-r6d11c",
  "result" : { }
}

d


Jon Duvick
PlantGDB Manager
http://www.plantgdb.org/
Department of Genetics, Development and Cell Biology
2258 Molecular Biology Building
Iowa State University
Ames IA 50011

(515) 294-2360
(515) 294-6755 FAX
________________________________
From: iplant-api-dev-bounces at iplantcollaborative.org <iplant-api-dev-bounces at iplantcollaborative.org> on behalf of Barthelson, Roger A - (rogerab) <rogerab at email.arizona.edu>
Sent: Thursday, May 28, 2015 1:38 PM
To: Duvick, Jonathan P [GDCBS]
Cc: Discussion of iPlant API development
Subject: [Iplant-api-dev] LMOD errors

Is this fixed yet or is it still difficult to identify the root cause?

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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