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shahab-sarmashghi / RESPECT

Estimating repeat spectra and genome length from low-coverage genome skims
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Couldn't find index page for 'gurobipy' (maybe misspelled?) #16

Closed xiekunwhy closed 1 year ago

xiekunwhy commented 1 year ago

Hi,

I got following errors when installing RESPECP, do you know why and how to solve it?

mamba install -c conda-forge -c bioconda -c https://conda.anaconda.org/gurobi jellyfish seqtk gurobi python setup.py install

Processing dependencies for respect==1.3.0 Searching for gurobipy>=7.0.2 Reading https://pypi.gurobi.com/gurobipy/ Couldn't find index page for 'gurobipy' (maybe misspelled?) Scanning index of all packages (this may take a while) Reading https://pypi.org/simple/ error: The read operation timed out

Best, Kun

shahab-sarmashghi commented 1 year ago

Hi Kun,

There were some issues with the newer versions of some dependencies so I changed the setup.py script to limit the Python version to 3.7 or 3.8, and also some of the dependencies versions. I have also not tested installing using mamba. Can you create a new conda environment and install the latest release that I just published and only use conda to install dependencies to see if the issue is solved?