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PouletAxel / SIP

SIP: Significant Interaction Peak caller
GNU General Public License v3.0
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cooler and cooltools version tests fail #8

Closed adadiehl closed 3 years ago

adadiehl commented 3 years ago

Please see command and output...

java -jar /data/software/SIP/SIP_HiC_v1.6.1.jar cool data/matrix/GM12878_NlaIII_native_20190805_5566f_guppy_3.4.8hac_GRCh38_bwa_0.7.17_sensitive.matrix.balanced.mcool /data/genomes/hg38/hg38.chrom.sizes loops/ /home/adadiehl/.conda/envs/cooler_env/bin/cooler /home/adadiehl/.conda/envs/cooler_env/bin/cooltools -cpu 12 
cooler, version 0.8.10
cooltools, version 0.4.0.dev0
/home/adadiehl/.conda/envs/cooler_env/bin/cooler or/home/adadiehl/.conda/envs/cooler_env/bin/cooltools is not the good version for SIP (it needs cooltools version >= 0.3.0 and cooler version >= 0.8.6) !!!”
PouletAxel commented 3 years ago

Hi, the command line is java -jar SIP_HiC.jar cool mcoolFile chrSizeFile Output cooltoolsPath coolerPath options

in your command line you put cooler before cooltools, if you change the order it will work, Best Axel

adadiehl commented 3 years ago

Thank you for the quick responses! Fixing the order of cooltools and cooler in the args, as per your suggestion, fixed the problem. This was after I switched to a non-dev version of cooltools, so don't know if the non-numeric version number is still an issue, but it's probably worth mentioning that the first legacy version I installed with pip had a non-numeric suffix also. This is apparently something their development team likes to do. Sounds like you're fixing that, though. Cheers, Adam

On Wed, Oct 21, 2020 at 8:23 AM PouletAxel notifications@github.com wrote:

Hi, the command line is java -jar SIP_HiC.jar cool [options]

in your command line you put cooler before cooltools, if you change the order it will work, Best Axel

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PouletAxel commented 3 years ago

Cool thanks Axel