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ebi-pf-team / interproscan

Genome-scale protein function classification
Apache License 2.0
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assorted errors #361

Closed jasonwjohns closed 3 months ago

jasonwjohns commented 6 months ago

Hi,

I am trying to run Interproscan on an hpc and I am getting various errors. I have included both the errLog and outLog files below. When I run ./interproscan.sh I get:

Welcome to InterProScan-5.67-99.0 04/05/2024 09:41:35:959 Running InterProScan v5 in STANDALONE mode... on Linux usage: java -XX:+UseParallelGC -XX:ParallelGCThreads=2 -XX:+AggressiveOpts -XX:+UseFastAccessorMethods -Xms128M -Xmx2048M -jar interproscan-5.jar

Previously I was getting an error associated with pfscan/pfsearch, so I installed the "ps_scan_linux_x86_elf.tar.gz" binaries from Expasy and updated the interproscan.properties values as directed. Given my errors below, I'm wondering if you would recommend doing the same for fingerPRINTSscan and hhmer3? As you can see, there was also an error for pfscan with the invalid option -- 'l'. Maybe you can help resolve this as well?

I'm posting now in hopes that you can help guide my troubleshooting and cut it down, as I have some hours into it already at this point. I'm pretty novice when it comes to software configuration and the nitty gritty of computers in general. Thank you in advance for any guidance you can provide!

Jason

errLog errLog.txt

outLog outLog.txt

matthiasblum commented 6 months ago

Hi @jasonwjohns,

You can give our Docker image a try. This way, you shouldn't have any dependency issues.