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Following installation instructions step by step leads to issue installing two python packages as dependencies:
ERROR: pip's dependency resolver does not currently take into account all the package…
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Hello everyone,
I'm trying to download the database, but it's been stuck at step 11 for a long time. Does anyone know how to solve it?
2022-01-29 13:50:21,673 [INFO]: Step 11
2022-01-29 13:50:…
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Hello,
I am running Clinker on a server (installed via conda) for five genomes (from the same genus); gbk files were downloaded from GenBank. I use the following command:
`clinker ./genomes/*.gbk…
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Hi Matt,
I've been trying to run get_seq_lengths.py and I keep getting this error:
Traceback (most recent call last):
File "/Applications/HybPiper/get_seq_lengths.py", line 68, in
seq_l…
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MingwPy related PRs to Numpy that got reverted (in https://github.com/numpy/numpy/pull/6534) are https://github.com/numpy/numpy/pull/5614 and https://github.com/numpy/numpy/pull/6354. The issues seeme…
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Hi, thanks for this.
I'm running this on a bunch of *.faa files using this command:
```
for input_file in "$input_directory"/*.faa; do
if [[ -f "$input_file" ]]; then
filename=$(b…
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Hi,
I tried to install cuteSV via pip and via the git repository, but it failed both times with an error involving PyVCF (see code snippet below).
It seems to be the same issue as described here: …
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Hi,
I would like to run batch predictions, although the following error occurs:
"/usr/local/lib/python3.7/dist-packages/Bio/Data/SCOPData.py:21: BiopythonDeprecationWarning: The 'Bio.Data.SCOPDa…
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According to the [README docs](https://github.com/gibsonlab/chronostrain#core-interface-quickstart-unix-):
> The TSV file must contain at least the following columns: Accession, Genus, Species, St…
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e.g. using https://github.com/peterjc/galaxy_blast as an example,
``` bash
$ planemo --version
planemo, version 0.18.1.dev0
$ ls -a packages/package_blast_plus_2_2_31
. .. .shed.yml tool_dependen…