tpt-reporting

Terrestrial Parasite Tracking Reporting Methods

Please click on above travis badge to view current TPT reports.

For archived reports from TPT project see https://doi.org/10.5281/zenodo.3685364 and https://globalbioticinteractions.org/parasitetracker

Creating a new archived report

1. Make a list of GloBI/Elton index configurations species interaction datasets. (e.g., see https://raw.githubusercontent.com/globalbioticinteractions/globalbioticinteractions.github.io/master/_data/parasitetracker.tsv)

Example:

$ curl -Ls "https://raw.githubusercontent.com/globalbioticinteractions/globalbioticinteractions.github.io/master/_data/parasitetracker.tsv" | tail -n+2 | cut -f10 | sort | uniq | head -n5
EMTuckerLabUMMZ/ummzi
globalbioticinteractions/ansp-para
globalbioticinteractions/bpbm-ent
globalbioticinteractions/brtc-para
globalbioticinteractions/byu-byuc

Another example of a list related to Big Bee TCN:

$ cat ~/proj/globi/globalbioticinteractions.github.io/_data/bigbee.tsv | tail -n+2 | cut -f10 | sort | uniq
EMTuckerLabUMMZ/ummzi
globalbioticinteractions/asu-asuhic
globalbioticinteractions/cas-ent
globalbioticinteractions/emec
globalbioticinteractions/fsca
globalbioticinteractions/ku-semc
globalbioticinteractions/lacm-lacmec
globalbioticinteractions/mcz
globalbioticinteractions/sdnhm-sdmc
globalbioticinteractions/ucm-ucmc
globalbioticinteractions/ucsb-izc
globalbioticinteractions/unhc-unhc

2. Save the list to a file (e.g., somefile.tsv)

3. run report script: generate-report.sh [filename]

e.g.,

$ ./generate-report.sh somefile.tsv
...

4. after generating the report, the results should be available in the output/ folder.