Jiayi-Zheng

@jinyuanchun @kenneditodd @zhalenima I solved this problem by: 1) type `https://api.github.com/repos/satijalab/seurat-wrappers/tarball/HEAD` in any web server and you'll see a file named 'satijalab-seurat-wrappers-d28512f.tar.gz' downloading, it's around 50M. (do not use `wget...

@brianpenghe Hi may I consult how you resolved the problem? The comment says upgrade anndata to 0.8.0 but mine already is 0.8.0 and the error message remains.

@ktpolanski I re-created a new conda env and installed scanpy so now it's working. I'm still not sure where the problem lies, though I did realize it starts jumping error...

I'm not sure what is the cause of the problem and how to resolve it. But it I remove everything in the metadata aside from index and genecount/genenumber the error...

Hi Andrea, The xxx is the name of packages telling you version not compatible or need update or other (really there's a bunch of them) issues when doing the Seurat...

Same here. Version 0.17.17

@phoenixding Thank you so much for your reply! I tried add: `import os os. chdir('/home/joyzheng/.conda/envs/py38/lib/python3.8/site-packages/tbsp')` to top lines of `bam2vcf.py`, still it showed `ModuleNotFoundError: No module named 'File'`, but when...

@phoenixding Hello, I was trying the program and did: ``` cd /home/user/.conda/envs/py38/lib/python3.8/site-packages/tbsp #where bam2vcf.py is placed python bam2vcf.py -i /usersdata/user/GW15_Trachea/GW15-Trachea/outs/cells/1.bam -r /home/user/picard/GRCh38.primary_assembly.genome.fa -o /usersdata/user/GW15_Trachea/GW15-Trachea/outs/1.vcf #I also tried using this command...

@phoenixding I tried: ``` cd /home/user/.conda/envs/py38/lib/python3.8/site-packages/tbsp #where bam2vcf.py is placed python bam2vcf.py -i /usersdata/user/GW15_Trachea/GW15-Trachea/outs/mycell/2.bam -r /home/user/picard/GRCh38.primary_assembly.genome.fa -o outs ``` However, it's still showing the same error: ``` Traceback (most recent...

@JingtaoWang22 Thank you for your help. It didn't fix the problem, the same error still occurs (I tried `print(outputdir)` as well and it prints `outs`) Meanwhile, since the error mentioned...