Shareef Dabdoub

DataFrame is highly fragmented warning

2

Hi All, I was running the MAG annotation process and got the following warning: `0:09:51.057434: Getting reverse best hits from peptidase DRAM/lib/python3.9/site-packages/mag_annotator/annotate_bins.py:120: PerformanceWarning: DataFrame is highly fragmented. This is usually...

VOG annotations Description_Db_Updated: Unknown, or Never

1

After a fresh run of prepare_databases with no errors, when I have DRAM print settings, I get the following: ``` VOG annotations: Description_Db_Updated: Unknown, or Never Citation: J. Thannesberger, H.-J....

kmer2read_distr uses omp_get_num_procs() instead of omp_get_num_threads() to check the validity of the -t parameter

1

https://github.com/jenniferlu717/Bracken/blob/699e89169b72c5330c64259dcbafa1a40133f3f2/src/kmer2read_distr.cpp#L170

Installation docs need to specify correct version of GTDB to download (max R214)

1

Since Aviary installs GTDB-tk v2.3.2, users can download, at most, GTDB R214. GTDB-tk v2.4.0 switches from fastani to skani which changes paths in the database causing the GTDB task in...