CNVkit batch issue

[NIBIL401]

The cnvkit batch command is not working for version 0.9.11.dev0. It is not running and doesnot showing any error

[bagieutopia]

cnvkit.py batch S17_repeat.sorted.bam -n hg38_flatreference.cnn --targets hg38_exome_twist.bed --antitargets hg38_antitargets.bed --fasta ../reference/hg38.fa -d cnv/
i used this command to run cnvkit in batch mode for 1 whole exome sequencing cancer sample. The targets bed file was taken from the twist biosciences website. this is the error I'm getting: ValueError: file does not contain alignment data
I've checked my sorted bam file and my hg38.fa file cant find anything wrong, also updated the cnvkit version nothing worked I don't know what the issue is..please help!!

[etal]

@NIBIL401 Multiprocessing tends to gobble up the error messages and any traceback. Can you try it with -p 1?

@bagieutopia My guess is that various updates and deprecations in pandas and the type system have broken some functionality. I'm resolving these in PR #878 . Would you like to try the development branch fixes0424 and see if the batch command works for you there?