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* gn3/api/search.py (parse_boolean_prefixed_field): New function.
(parse_query): Use parse_boolean_prefixed_field for the group field.
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With the STEM_SOME, xapian does not stem query words that start with a
capital letter. Hence, we switch to the STEM_ALL strategy.
* gn3/api/search.py (parse_query): Set stemming strategy to STEM_ALL.
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* scripts/index-genenetwork (is_data_modified): Provide directory
instead of specific ttl file.
(create_xapian_index): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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original: https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/maintainance/addRif.py
Included some changes to make it python3 compatible
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environment
Also fixes issue where the control marker keyword was wrong
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* scripts/index-genenetwork (hash_rdf_graph): Remove check for the
turtle directory.
(is_data_modified): Ditto.
(create_xapian_index): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* scripts/index-genenetwork (hash_generif_graph): Rename to
hash_rdf_graph. Generate a checksum of all the turtle files inside
the ttl directory that's the basis for the GN virtuoso graph.
(create_xapian_index): Rename hash_generif_graph -> hash_rdf_graph.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* scripts/index-genenetwork (hash_generif_graph): Add proper type
hints.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* scripts/index-genenetwork (hash_generif_graph): Build the generif
checksum by directly building it from the file.
(is_data_modified): Update how generif-checksums are verified.
(create_xapian_index): Update how generif-checksums are stored in
XAPIAN.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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This change needs to be accompanied by a change in GN2! If it's lower
than the GN2 MAX_SEARCH_RESULTS value, searches will throw an error.
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The Name is generally used as the identifier, while the FullName can container spaces which can cause problems
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This reverts commit b21102bc4ad3678173e7c94d3e66333ec7c1d40a.
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Without this check, there will always be an error when this script is
run with the "is-data-modified" flag should there be no database in
the XAPIAN_DIRECTORY.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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In the CI build, the actual build is run in the
xapian_directory/build, which is seen as the xapian_directory in this
script. The CI handles clean up WRT removing files related to the
build process.
* scripts/index-genenetwork (create_xapian_index): Create the xapian
directory if it doesn't exist. If the xapian directory has files,
exit. Create the temporary directory inside the xapian_directory.
Remove "build_directory.rmdir()"
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* scripts/index-genenetwork (is_data_modified): Replace click.echo
with the respective sys.exit call.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Right now, the checks are done in Guix's build expression. This moves
that work to the index-genenetwork script.
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* scripts/index-genenetwork (verify_checksums): New function.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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