CompareM

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Failed to process sequence file

1

Good day, I am running CompareM on a directory and I got this result: Failed to process sequence file. What should I do to rectify this?

taracj36

aai workflow results gives 0 orthologous and 0 mean AAI

2

the aai statistics provided in aa_summary.tsv gives 0 mean AAI and 0 orthologous.

mosassi

Dear CompareM team, With the newest diamond version 2.0.14m --sensitive mode, all are 0 in the aai.summary.tsv. With blastp it is ok. Thank, Jianshu

jianshu93

When I use CompareM for analysis, I always encounter incorrect input file type input. Could you please provide me with example files, such as protein_gene_files, nucleotide_gene_files and input_files. > comparem...

swmuyu

gsort for macOS instead of sort?

1

Dear CompareM team, I am wondering whether comparem works for macOS via using gsort(GNU sort can be installed on macOS). Thanks, Jianshu

jianshu93

Is the input file required to be a CDS file？

6

fujch7

Hello, Is it possible to use compareM to compute non-reciprocal AAI (different query and target genes). I ran it using the following command : ``` nice -19 comparem aai -c...

drs

self.logger.error(f'Unrecognized image format: {img_format}')

4

Dear authors: I have installed compareM in debian 8 and 9 operating system, python 2.7 via pip install which installs all the dependencies (I already verified that they are correctly...

gamlopez

A quickstart running on Mac OS X

10

Bits and pieces of comparem are mildly incompatible with Mac OS X (Sierra, in my case). See [this quickstart](https://hackmd.io/EwMwbAnGCsAs0Fp4GYRIIYCNERMZCAHMhMQOwCmm6hAxgCZA?view) for getting it working. I'll provide patches and pull requests as...

ctb

TypeError: cannot unpack non-iterable NoneType object

1

Hi, I was trying to perform comparM aai_wf on two genomes of bacteria . I used the command aai_wf mygenomes out --proteins The error I received was - [2020-05-16 10:35:23]...

dikshyantg