Question: Mothur not working. Libboost error message
0
gravatar for niradsp
16 months ago by
niradsp0
niradsp0 wrote:

Here is the error message I am receiving. Anything I can do about it, or anything that I am doing wrong? Please help. The message is below:

mothur: error while loading shared libraries: libboost_iostreams.so.1.57.0: cannot open shared object file: No such file or directory

Update: Mothur is working when I use the galaxy instance. It is the main server that is not working.

software error galaxy • 625 views
ADD COMMENTlink modified 12 months ago • written 16 months ago by niradsp0

Just to give more details. I have 96 pairs of fastq files. From that, I create paired collection list. Then I tried running make.contigs. So the error was generated by this command. It should also be noted that when I uploaded Mothur files that I generated using my own laptop, and then tried to run count.seqs, I received the same error message.
EDIT: I tried Mothur on just a pair of fastq files. Same error message. Exit code 127.

ADD REPLYlink modified 16 months ago • written 16 months ago by niradsp0
1
gravatar for Jennifer Hillman Jackson
12 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Update: The Mothur tools were just corrected at Galaxy Main (https://usegalaxy.org). Details: https://biostar.usegalaxy.org/p/24985/#25076

ADD COMMENTlink written 12 months ago by Jennifer Hillman Jackson25k
0
gravatar for niradsp
12 months ago by
niradsp0
niradsp0 wrote:

Hello Jennifer, Thank you for the update. The program is working. However, I have a different error message now:

"This job was terminated because it used more memory than it was allocated. Please click the bug icon to report this problem if you need help."

I was trying to run the cluster.split command on the dist file. To give you an idea, the dist file is close to 36 GB file. The split command should create smaller dist files. I assume that even the split files could not be loaded to RAM. Any chance the memory could be increased for this run?

Thanks in advance.

ADD COMMENTlink written 12 months ago by niradsp0

This error and input size does indicate the job is running out of resource. I opened a ticket to have the resources for Mothur tools reviewed, please follow progress here: https://github.com/galaxyproject/usegalaxy-playbook/issues/49

ADD REPLYlink written 12 months ago by Jennifer Hillman Jackson25k
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