pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.
When trying to input a pickle (dat) file of regulons for pyscenic aucell, I got the following error: pyscenic.cli.pyscenic - ERROR - binary mode doesn't take an encoding argument. This is due to line 33 of ctxcore/genesig.py, which should be changed so that an encoding argument isn't used like so return open(filename, mode).
Version information: pyscenic 0.12.1, python 3.9.18, pickle 4.0. Executed on a HPC running CentOS Linux 7.
When trying to input a pickle (dat) file of regulons for
pyscenic aucell, I got the following error:pyscenic.cli.pyscenic - ERROR - binary mode doesn't take an encoding argument. This is due to line 33 of ctxcore/genesig.py, which should be changed so that an encoding argument isn't used like soreturn open(filename, mode).Version information: pyscenic 0.12.1, python 3.9.18, pickle 4.0. Executed on a HPC running CentOS Linux 7.