Comments (4)
Hello Jenna,
thanks for using ASA³P. Due to your logs there seems to occur an internal issue with Singularity. I'll try to reproduce this with a fresh local setup. In the meantime, could you please execute the pipeline in debug mode (asap-docker.sh -d ...
) and provide the then more detailed log files?
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Hi Oliver -
Thanks for the reply. Attached are the outputs from running in debug mode:
asap.log
Listeria_monocytogenes_SRR2982078.std.log
I agree the error is something related to singularity...
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Hello @jennahamlin , sry for the late reply. I'm still trying to figure out what's going on - so far without a hint.
But I'm currently thinking of rewriting the technical backbone and to use Bioconda as requested by other users. I hope this will fix this issue. I'll let you know once I've come up with a new release. I'm very sorry that I cannot provide with a short-term solution right now...
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@oschwengers - no worries for the late reply; will keep an eye out for when it is available via bioconda.
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Related Issues (20)
- characterization steps failed HOT 12
- Download of "main" tarball fails HOT 2
- [help] pipeline stuck HOT 9
- Rewrite Readme by usage of an popular template and adding a Makefile ✍️ HOT 1
- add input support HOT 2
- Doesn't work under conda HOT 2
- User facing issue during QC step HOT 8
- Add resume option
- Tutorial error HOT 5
- Random Genome Failings HOT 4
- helper tool [suggestion] HOT 1
- max waiting period (86400000 s) exceeded! HOT 2
- Issues downloading asap.tar.gz HOT 4
- M1 Macbook compatibility HOT 1
- Groovy error at startup HOT 3
- Java.lang.IllegalStateException: abnormal ABR exit code! exitCode=1
- how to avoid sudo privileges while using the docker container? HOT 1
- asap/asap-docker.sh script can not be found in its container HOT 2
- Question: how to specify threads in asap-docker.sh? HOT 3
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