Kyle McChesney

I have had quite a bit of trouble using a mock on `JsonRef.replace_refs` for testing my application which uses it. Here is an example: ```python @patch.object(JsonRef, "replace_refs") def test_mock(self, mocked_replace_refs):...

strange error with query

3

I am experiencing the following issue with the `query` command. I've build a kmer database from hg38 using the following command: `jellyfish count -m 15 -t 5 -s 100M -L...

Support for circular genomic identifiers

4

I am currently getting a parser error when using the `o.` genomic DNA identifier (from https://varnomen.hgvs.org/bg-material/refseq/). The error can be reproduced with the following code: ```python from hgvs.easy import parse...

**Describe the bug** An un-handeled error seems to occur at this line: https://github.com/pinellolab/CRISPResso2/blob/master/CRISPResso2/CRISPRessoCORE.py#L4568 The code is: ```python pe_modification_percentage_summary_df = pd.DataFrame(mod_pcts, columns=colnames).apply(pd.to_numeric,errors='ignore') ``` The error is: ```python ipdb> pe_modification_percentage_summary_df = pd.DataFrame(mod_pcts,...