Need help with humann tool

Hello all,

Greetings of the day.
I am trying to analyze shotgun metagenome data through humann but I am getting an error.
This is the code that I used:
humann --input u4.tsv --output result #Here, u4.tsv is the abundance table, It looks like this.

merged_abundance_table_species.csv (990 Bytes)

and the error that i am getting is this:
Process the sam mapping results …
Traceback (most recent call last):
File “/home/rishav/anaconda3/envs/seurat4/bin/humann”, line 33, in
sys.exit(load_entry_point(‘humann==3.6’, ‘console_scripts’, ‘humann’)())
File “/home/rishav/anaconda3/envs/seurat4/lib/python3.7/site-packages/humann/”, line 1079, in main
args.input, alignments, unaligned_reads_store, keep_sam=True)
File “/home/rishav/anaconda3/envs/seurat4/lib/python3.7/site-packages/humann/search/”, line 263, in unaligned_reads
if int(info[config.sam_flag_index]) & config.sam_unmapped_flag != 0:
ValueError: invalid literal for int() with base 10: ‘C27a_N’

Kindly help regarding this concern.
I tried to convert my table to numeric also but then also this error is showing

Hello, Does your abundance file contain data for multiple samples? If so, if you split it into a single file per sample this should resolve the error you are seeing if the file is of the expected format with a single row for each feature. HUMAnN expects a single file per run with each file representing a single sample.

Thank you,

Ok, I try to do as per your suggestion,
Thanking you
Rishav Sahil

Great! Please post again if you continue to run into issues.