Hi,
I have used following command to run concoct.
concoct --coverage_file /media/majorram/Analysis_Data/singhrn/ramesh/bowtie2_mapping/nw_mapping/nw-all-mapping/nw_depth_matrix.tsv --composition_file /media/majorram/Analysis_Data/singhrn/ramesh/trimmed/megahit_nw-assmbly/nw-all_assmbly/scaffold.contigs.fa -t 20 -b /media/majorram/Analysis_Data/singhrn/ramesh/binning/con_bin/ -o
Error:
TypeError: Feature names are only supported if all input features have string names, but your input has ['int', 'str'] as feature name / column name types. If you want feature names to be stored and validated, you must convert them all to strings, by using X.columns = X.columns.astype(str) for example. Otherwise you can remove feature / column names from your input data, or convert them all to a non-string data type.
Log attached here for review.
I am not very advanced in scripting. Pls help me understand and rectify the issue.
Hi, I have used following command to run concoct. concoct --coverage_file /media/majorram/Analysis_Data/singhrn/ramesh/bowtie2_mapping/nw_mapping/nw-all-mapping/nw_depth_matrix.tsv --composition_file /media/majorram/Analysis_Data/singhrn/ramesh/trimmed/megahit_nw-assmbly/nw-all_assmbly/scaffold.contigs.fa -t 20 -b /media/majorram/Analysis_Data/singhrn/ramesh/binning/con_bin/ -o
where: metagenome assembly: scaffold.contigs.fa mapping table: nw_depth_matrix.tsv (bowtie2)
Error: TypeError: Feature names are only supported if all input features have string names, but your input has ['int', 'str'] as feature name / column name types. If you want feature names to be stored and validated, you must convert them all to strings, by using X.columns = X.columns.astype(str) for example. Otherwise you can remove feature / column names from your input data, or convert them all to a non-string data type. Log attached here for review. I am not very advanced in scripting. Pls help me understand and rectify the issue.
log.txt
Thanks rgds Ram