mgalardini
commented
4 years ago Hi,
try to call the python interpreter directly, it may be that you installed biopython in a different python environment than the one you are using to call CONTIGuator. Alternatively try this:
python2 -m pip install biopython
python2 CONTIGuator.py -r ../REFERENCE/NC_011294.fna -c../ASSEMBLY/19223XD-01-01_S166.HCov.contigs.fasta -P -A -M -N -f 19223XD-01-01_S166
Hope this helps, Marco
On Sat, Sep 19, 2020 at 5:12 AM Manuel Ramirez notifications@github.com wrote:
Hello
In work with CONTIGuator to reorder assembled contig using a reference genome. In this days, I installed Ubuntu 20.04, and I tried to execute CONTIGuator.py, as always, with options like this:
CONTIGuator.py -r ../REFERENCE/NC_011294.fna -c ../ASSEMBLY/19223XD-01-01_S166.HCov.contigs.fasta -P -A -M -N -f 19223XD-01-01_S166
But, prompt said me:
020-09-18 21:57:56 Starting CONTIGuator 21:57:56 Checking software requirements 21:57:56 ERROR: BioPython is missing!
I checked biopython installation but the same ERROR appear.
I hope to count with your help. Thanks in advance!
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-- Marco Galardini
mramirezs
Hello
In work with CONTIGuator to reorder assembled contig using a reference genome. In this days, I installed Ubuntu 20.04, and I tried to execute CONTIGuator.py, as always, with options like this:
CONTIGuator.py -r ../REFERENCE/NC_011294.fna -c ../ASSEMBLY/19223XD-01-01_S166.HCov.contigs.fasta -P -A -M -N -f 19223XD-01-01_S166
But, prompt said me:
020-09-18 21:57:56 Starting CONTIGuator 21:57:56 Checking software requirements 21:57:56 ERROR: BioPython is missing!
I checked biopython installation but the same ERROR appear.
I hope to count with your help. Thanks in advance!