[amitbik]

I am getting this error.

$ python blastxml_to_tabular.py outfmt5.xml outfmt.tsv std
ERROR: The script API has changed, sorry.

[maubp]

I am getting this error.

$ python blastxml_to_tabular.py outfmt5.xml outfmt.tsv std
ERROR: The script API has changed, sorry.

Sorry, with hindsight that message was too cryptic - I have updated that as of this commit https://github.com/peterjc/galaxy_bl...cd13b6541e832b

The equivalent would now be:

$ python blastxml_to_tabular.py -o outfmt.tsv -c std outfmt5.xml

This was reworked as part of allowing multiple XML inputs (for conversion to a single tabular output). For more details, see:

$ python blastxml_to_tabular.py -h

[amitbik]

Thank a ton .... maubp

It worked now.....

[amitbik]

Hi.... maubp

I have one question can it be possible to give the column heading in the tabular format?
After converting from xml to tabular format it confusing to know which column representing what exactly.

Thank you..

[maubp]

The tool tries to mimic the BLAST+ output mode 6 (tabular), which (sadly) does not include column headers. BLAST+ does include column headers and a whole load of other comment lines in mode 7 (tabular with comment lines), but I find that very verbose and wasteful of disk space.

[amitbik]

Thank you ...maubp
Thanks for the information...