What steps will reproduce the problem?
1. Installation problem or running interproscan.sh
What is the expected output? What do you see instead?
I want to run InterProScan stand-alone in my computer
What version of the product are you using? On what operating system?
InterProScan 5 v44.0
Please provide any additional information below.
I have done the following steps to install and use the program:
# Installation and unpacking InterProScan 5 v44.0
mkdir my_interproscan
cd my_interproscan
wget
ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/5/5-44.0/interproscan-5-44.0-64-bi
t.tar.gz
tar -pxvzf interproscan-5-44.0-64-bit.tar.gz
# Run GO terms search
./interproscan.sh –i iputfile.fasta –f tsv –t n –dp –goterms –o
outputfile
I have just done the steps that I show you. When I run the last script I have
obtained "permisson denied to interproscan.sh". So I have used:
chmod +x interproscan.sh
But when I run again I obtain the following text:
./interproscan.sh -i test_proteins.fasta -f tsv
08/10/2013 16:40:15:830 Welcome to InterProScan-5-44.0
./interproscan.sh: line 38: 6814 Killed "$JAVA"
-XX:+UseParallelGC -XX:ParallelGCThreads=2 -XX:+AggressiveOpts
-XX:+UseFastAccessorMethods -Xms128M -Xmx2048M -jar interproscan-5.jar $@ -u
$USER_DIR
I am not a expert in command-line, but I would like to run a InterProScan
search to obtain GO terms for a large fasta file (RNA-seq data). Thank you in
advance.
Original issue reported on code.google.com by
lostomat...@gmail.comon 8 Oct 2013 at 2:50