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NAL-i5K / tripal_eutils

ncbi loader via the eutils interface
GNU General Public License v3.0
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Linked records: Assemblies in project #163

Closed bradfordcondon closed 5 years ago

bradfordcondon commented 5 years ago

in #137 I realize that #62 was resolved and we can therefore insert linked assemblies from project. Need to implement.

project 350852 should use this line: <LocusTagPrefix assembly_id="GCF_001411555" biosample_id="SAMN03704235">BLL54</LocusTagPrefix>

bradfordcondon commented 5 years ago

verified in #164 

 Calling: tripal_eutils_create_records(bioproject, 350852, 1)
INFO (TRIPAL_EUTILS): Inserting record into Chado: bioproject: 350852
INFO (TRIPAL_EUTILS): Inserting record into Chado: assembly: 559011
INFO (TRIPAL_EUTILS): Inserting record into Chado: pubmed: 9023104
NOTICE (PUB_IMPORT): The following publication already exists on this site:  Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.. Nucleic acids research. 1997 Mar 01; 25(5):955-64. PMID:9023104 (Matching Pub id: 208). Skipping.
[site http://default] [TRIPAL NOTICE] [PUB_IMPORT] The following publication already exists on this site:  Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.. Nucleic acids research. 1997 Mar 01; 25(5):955-64. PMID:9023104 (Matching Pub id: 208). Skipping.
INFO (TRIPAL_EUTILS): Inserting record into Chado: pubmed: 27145194
NOTICE (PUB_IMPORT): The following publication already exists on this site:  Martínez-García PJ, Crepeau MW, Puiu D, Gonzalez-Ibeas D, Whalen J, Stevens KA, Paul R, Butterfield TS, Britton MT, Reagan RL, Chakraborty S, Walawage SL, Vasquez-Gross HA, Cardeno C, Famula RA, Pratt K, Kuruganti S, Aradhya MK, Leslie CA, Dandekar AM, Salzberg SL, Wegrzyn JL, Langley CH, Neale DB. The walnut (Juglans regia) genome sequence reveals diversity in genes coding for the biosynthesis of non-structural polyphenols.. The Plant journal : for cell and molecular biology. 2016 09; 87(5):507-32. PMID:27145194 (Matching Pub id: 234). Skipping.
[site http://default] [TRIPAL NOTICE] [PUB_IMPORT] The following publication already exists on this site:  Martínez-García PJ, Crepeau MW, Puiu D, Gonzalez-Ibeas D, Whalen J, Stevens KA, Paul R, Butterfield TS, Britton MT, Reagan RL, Chakraborty S, Walawage SL, Vasquez-Gross HA, Cardeno C, Famula RA, Pratt K, Kuruganti S, Aradhya MK, Leslie CA, Dandekar AM, Salzberg SL, Wegrzyn JL, Langley CH, Neale DB. The walnut (Juglans regia) genome sequence reveals diversity in genes coding for the biosynthesis of non-structural polyphenols.. The Plant journal : for cell and molecular biology. 2016 09; 87(5):507-32. PMID:27145194 (Matching Pub id: 234). Skipping.