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Resolve "fix paths to resources and config values"

Merged Resolve "fix paths to resources and config values"
32-fix-paths-to-resources-and-config-values into master
Merged Mouhamadou Ba requested to merge 32-fix-paths-to-resources-and-config-values into master
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config/config.yaml
+ 11
− 5
@@ -6,6 +6,12 @@ USE: "ancillaries/Use_V2.obo"
ONTONAMES: "BioNLP-OST+EnovFood-Habitat BioNLP-OST+EnovFood-Phenotype Use_V2"
NCBI_TAXO_ID: ancillaries/ncbi-taxonomy-prefix/taxa+id_full.txt"
NCBI_TAXO_MICROORGANISMS: ancillaries/ncbi-taxonomy-prefix/taxa+id_microorganisms.txt"
MAP_BACDIVE_TAXID: "ancillaries/ncbi-taxonomy-prefix/dsmz-match/bacdive-to-taxid.txt"
## cirm
CIRM_FOLDER_NAME : "cirm"
CIRM_CORPUS_HOME : "corpora/cirm/"
@@ -32,9 +38,9 @@ DSMZ_HABITAT_CORPUS : "corpora/dsmz/dsmz-data/category=origin-key=sample_type.ts
DSMZ_RESULT : "corpora/dsmz/test-3.3.txt"
## pubmed
PUBMED_FOLDER_NAME : "microbes-2019"
PUBMED_CORPUS_HOME : "corpora/microbes-2019"
PUBMED_BATCHES_HOME : "corpora/microbes-2019/batch"
PUBMED_FOLDER_NAME : "pubmed"
PUBMED_CORPUS_HOME : "corpora/pubmed"
PUBMED_BATCHES_HOME : "corpora/pubmed/batch"
PUBMED_HABITAT_RESULT : "ancillaries/Florilege/2019-12-12/PubMed-Habitat-2019-12-12.txt"
PUBMED_PHENOTYPE_RESULT : "ancillaries/Florilege/2019-12-12/PubMed-Phenotype-2019-12-12.txt"
@@ -43,8 +49,8 @@ BIONLPOST_BATCHES_HOME : "corpora/BioNLP-OST-2019/batch"
BIONLPOST_API : "http://bibliome.jouy.inra.fr/demo/BioNLP-OST-2019-Evaluation/api"
## index
ALVISIR_INDEX : "corpora/microbes-2019/index"
ALVISIR_EXPANDER : "corpora/microbes-2019/expander"
ALVISIR_INDEX : "corpora/pubmed/index"
ALVISIR_EXPANDER : "corpora/pubmed/expander"
ALVISIR_EXPANDER_CONF : "ancillaries/expander.xml"