add_data_to_graph.sh errors out for older versions of curl

[alyssadai]

Is there an existing issue for this?

• I have searched the existing issues

Expected Behavior

For JSONLD data in specified directory to be successfully added to the graph without errors.

Current Behavior

curl error resulting in data not being added (confirmed by checking triple count in database).

Error message

(base) alyssayd@ducky:~/alyssa/projects/api$ ./add_data_to_graph.sh /data/origami/neurobagel_graph_data/ppmi 2
06.12.89.194:7200 repositories/mni_ppmi $NB_GRAPH_USERNAME $NB_GRAPH_PASSWORD --use-graphdb-syntax

UPLOADING DATA FROM /data/origami/neurobagel_graph_data/ppmi TO repositories/mni_ppmi...

ppmi.jsonld:
curl: option --no-progress-meter: is unknown
curl: try 'curl --help' or 'curl --manual' for more information
./add_data_to_graph.sh: line 185: ((: < 200 ||  >= 300 : syntax error: operand expected (error token is "< 200
 ||  >= 300 ")


FINISHED UPLOADING DATA FROM /data/origami/neurobagel_graph_data/ppmi TO repositories/mni_ppmi.

Environment

• curl version: 7.58.0 (x86_64-pc-linux-gnu)

How to reproduce

No response

Anything else?

According to the curl docs, --no-progress-meter was added in 7.67.0, while shared data servers like the BIC may have older versions of the tool.

An alternative to suppress the progress meter while still showing the response headers may be replace --show-progress-meter with a combination of the following arguments:

-s / --silent
-S / --show-error

How do we fix it

• document dependency on curl version in public docs
• sanity check in the upload.sh script for curl --version

here is a helpful little snippet, courtesy of gtp:

curl_version="$(curl --version | grep curl | awk '{print $2}' | cut -d'-' -f1)"

if [[ "$curl_version" < "7.67.0" ]]; then
  echo "error"
elif [[ "$curl_version" > "7.67.0" ]]; then
  echo "success"
fi