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# Test toil-exome at 2016-07-27 21:08:01.822548
---
## Command:
```
toil-exome run /mnt/jobstore --retryCount=1 --workDir=/mnt/work
```
## Config:
```
# CGL Exome Pipeline configuration file
# This…
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```
root@localhost:~/bioio-master# g++ -v
Using built-in specs.
COLLECT_GCC=g++
COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/4.9/lto-wrapper
Target: x86_64-linux-gnu
Configured with: ../src/confi…
tomck updated
8 years ago
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For instance by cloning BioIO repository when making.
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I can't seem to get `klust` working with BioIO's SeqEntry. I include it with:
``` cpp
#include
```
and it almost compiles, but fails with link errors like the following:
```
CMakeFiles/klust.dir/s…
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The quick fix for single end RNA-seq is failing at the first job task before starting anything.
This is the complete stacktrace:
`INFO:toil.lib.bioio:Logging set at level: INFO
INFO:toil.common:Usi…
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We are going to run with our supreme BioIO FASTA and FASTQ parser/emitter.
https://github.com/BIO-DIKU/BioIO
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When I run the attached script with the command:
```
python bug_script.py --logDebug ./foo
```
it non-deterministically hangs, sometimes after starting the first service, sometimes after starting th…
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On a toil-cluster, I was unable to get toil-scripts to run unless I pip installed toil-scripts on both the leader and the worker _outside_ of an venv.
This issue is blocked by #929, in a sense, sinc…
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I think we should have a benchmark plot where we compare performance of BioIO, seqtk, Heng Li, and Python. What should we plot?
- [ ] total time for parsing file with long reads
- [ ] total time for p…
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Proper class for reading and writing fasta files
- Reading IO
- Writing SeqEntry IO
- Iterator