Relaxing /tmp/foodonmuj4avcz to /tmp/tmpw74_g833_foodon_relaxed.owl...
Complete.
Before relax: 146924 lines. After relax: 147853 lines.
ROBOT preprocessing: merge and convert foodon
Merging and converting /tmp/tmpw74_g833_foodon_relaxed.owl to /tmp/tmpbev5bjb1_foodon_merged.owl...
Complete.
Before merge: 147853 lines. After merge: 661386 lines.
ROBOT preprocessing: node ID normalization on foodon
Retrieving entity names in /tmp/tmpbev5bjb1_foodon_merged.owl...
Exported IDs to /tmp/tmpbev5bjb1_foodon_merged.owl.ids.csv.
Found 817 unexpected identifiers.
Will normalize 805 identifiers.
Wrote IRI maps to data/foodon/2022-08-12/update_id_maps.tsv.
ROBOT preprocessing: convert foodon
Converting /tmp/tmpw74_g833_foodon_relaxed.owl to data/foodon/2022-08-12/foodon.json...
ROBOT encountered an error:
RAN: /home/harry/kg-obo/robot convert --input /tmp/tmpw74_g833_foodon_relaxed.owl --format json --output data/foodon/2022-08-12/foodon.json
STDOUT:
Cannot invoke "String.toString()" because "lv" is null
Use the -vvv option to show the stack trace.
Use the --help option to see usage information.
STDERR:
Will try to repair...
ROBOT encountered another error:
RAN: /home/harry/kg-obo/robot remove --input /tmp/tmpw74_g833_foodon_relaxed.owl --select object-properties --output data/foodon/2022-08-12/foodon.json
STDOUT:
Cannot invoke "String.toString()" because "lv" is null
Use the -vvv option to show the stack trace.
Use the --help option to see usage information.
STDERR:
ROBOT convert of foodon failed - skipping.
I'm getting a lot of deja vu with this issue. Will need to poke around other repos and see what may have happened before.
Describe the bug
Transform of
foodon
encounters this:I'm getting a lot of deja vu with this issue. Will need to poke around other repos and see what may have happened before.
To Reproduce
Expected behavior
The transform of
foodon
should be written to data/foodon/2022-08-12 locally, then uploaded.Version
efc2324f040d8daad14ffaaaa6e71583d6258117