Chris C Flerin

Hi, I have the same issue. Running `FindTransferAnchors` with `cca` causes a segfault. I have sufficient overlap in features between the two datasets, and this works without cca (thanks @elhaam...

I had the same problem as the original post. For me, this error: ``` In file included from fitsne/src/nbodyfft.cpp:4: fitsne/src/nbodyfft.h:7:10: fatal error: fftw3.h: No such file or directory #include ^~~~~~~~~...

Here's the head of the motifs file: ``` accession TF annotationSource description ENCFF545CHK CG15073 directAnnotation eGFP-CG15073 (embryonic: 0-24 hour) ENCFF200HSU CG15073 directAnnotation eGFP-CG15073 (embryonic: 0-24 hour) ENCFF496WVB CG15073 directAnnotation eGFP-CG15073...

After modifying my track-to-TF file using this suggestion, I was able to successfully run this step! The file now looks like: ``` #motif_id gene_name motif_similarity_qvalue orthologous_identity description ENCFF002LUO RFX5 0.000...

@hossam-zaki , I will look further into this but I would suggest using pySCENIC 0.11.1 for now as @eleozzr mentioned.

There's not really enough information here to help. At minimum you should provide the following from the bug report template: - pySCENIC version: [e.g. 0.10.0, use `pyscenic -h` at the...

Thanks for the info. I would recommend: - Update to pySCENIC 0.11.0 (there are package updates that could resolve this issue) - If the new version still doesn't help, you...

Hi @dioncst , Copying part of my answer to #258 that addresses this: The pySCENIC `0.11.0` container has the newest Scanpy installed, while the default container for SCENICprotocol pipeline (`0.9.18`)...

I'm not totally clear on what you mean, can you show the outputs of some regulons to show what is different?

Hi @MaybeJustJames , Thanks for the suggestion. pySCENIC does actually have process tracking built in for a number of steps, although it's maybe not always obvious. * GRN step: Running...