Genomecomb moved to github on https://github.com/derijkp/genomecomb
with documentation on https://derijkp.github.io/genomecomb.
For up to date versions, go there. These pages only remain here for the data on the older scientific
application (or if someone really needs a long obsolete version of the software)
tsv_diff
Format
cg tsvdiff ?options? file1 file2
Summary
compare tsv files
Description
tsvdiff compares tsv files, taking into account that they are tsv
files (if they have an extension indicating they are tsv files):
- order of fields is ignored: If the same fields are present but
in a different order, this is not shown as a difference
- Extra fields are only indicated in the beginning (header
difference), not in all the data lines. If file1 and file2 are
directories, they are recursively traversed and the diff made
between all files in them.
- Files are compared decompressed: files can be equal even if
one file is compressed and the other not.
Arguments
- file1
- file to compared to file2
- file2
- file to be compared to file1
Options
- -q 0/1 (-brief)
- only show files which differ (not the differences of each
file)
- -c 0/1
- ignore differences in comments
- -f fields
- only compare the given fields
- -x excludepattern (-exclude)
- exclude files that match excludepattern. This option
can be given multiple times
- -t l/xl/sd/diff (-type)
- type of diff: l first converts files to a long format where
each line is split so that for each field you get a line of the
form "fieldname fieldvalue" xl is similar to l, but adds
extra data describing the variant or region before each line (->
variant fieldname fieldvalue)
- -y 0/1 (-side-by-side)
- compare side by side
- -sc 0/1 (-suppress-common-lines)
- do not show common lines (in side by side comparison
- -split 0/1 (-splitlines)
- add an extra empty line between each line before comparison
(this will split up multiline diffs)
- -s 0/1/list (-sort)
- sort tsv files before comparing (sort order is ignored)
- -d progname (-diffprog)
- show diff using progname (conversion from e.g. xl type
is done first)
- -w number (-width)
- number of characters the display is wide (for side by side)
- -lines number
- only compare the first number of lines
Category
Dev
