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Error building singularity container #52
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Same here:
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Sorry for not addressing this sooner. I'll look tomorrow. Cc @martinghunt |
Strange. I just ran it and it worked for me:
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For me it did not hang for long before throwing up the error. But I have
run this on multiple occasions and it always fails at the enaDataGet
command for some reason.
…On Tue, Aug 13, 2019 at 2:54 PM martinghunt ***@***.***> wrote:
@pr0xxy <https://github.com/pr0xxy> did it hang for ages on the line:
enaDataGet -d tmp.3901 -f fasta CCBF00000000
before throwing the error? Or was it instant? I have had it hang on me and
had to kill it. (See issue #53
<#53>).
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git clone https://github.com/iqbal-lab-org/clockwork.git singularity image.create -s 8000 clockwork_container.img The script is called from clockwork_container.def What am I doing wrong? |
Are you behind a firewall? Could it be blocking the download? |
So I found out the FTP protocol has newly been blocked by our firewall. It seems I will need to find a HTTP mirror. I will update this with what happens. Thanks, pr0xxy |
The URLs are updated for those downloads, and are now HTTP instead of FTP. Please see release 0.7.8 https://github.com/iqbal-lab-org/clockwork/releases/tag/v0.7.8 |
I had this error after a while processing the singularity build command:
Error running: enaDataGet -d tmp.7933 -f fasta CVQQ00000000 at /clockwork/scripts/make_pipeline_reference_files.pl line 189.
ABORT: Aborting with RETVAL=255
I do not know what the issue is, it just says something unexpected went wrong, and to try again and if problem persists, ask for assistance.
Thanks for your time.
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