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Support for non mapped accession with taxid #1

Merged
merged 7 commits into from
Jan 31, 2017
Merged

Support for non mapped accession with taxid #1

merged 7 commits into from
Jan 31, 2017

Commits on Dec 13, 2016

  1. Added psycopg2 for postgresql support

    @horkko
    horkko committed Dec 13, 2016
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Commits on Dec 16, 2016

  1. - Support for PostgreSQL 

    - Support for chunk number during data insertion
    @horkko
    horkko committed Dec 16, 2016
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  2. Add indices on field accession for speed improvement when using taxad… 

    …b.accession
    @horkko
    horkko committed Dec 16, 2016
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  3. - Added method to be sure, when requesting taxid with a list of acces… 

    …sion number, the table exists in the database

- Also surrounded call to yield in case a taxid is not found in the database (E.g.: 0), do not throw stack trace but
  print a small error message on stderr
    @horkko
    horkko committed Dec 16, 2016
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  4. Merge branch 'postgres' of https://github.com/horkko/taxadb into taxid_0

    @horkko
    horkko committed Dec 16, 2016
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Commits on Dec 19, 2016

  1. - Loading data into database is made using 'insert_many' in order to … 

    …speed up a little bit

- Chunk value can be passed with 'create' sub option
- If a taxid is not found in the database, a message is thrown to the user
    @horkko
    horkko committed Dec 19, 2016
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Commits on Jan 31, 2017

  1. Duplicated loop l. 134 

    The line `for table, acc_file in acc_dl_dict.items():` was duplicated and caused the db with multiple accession tables to fail
    @HadrienG
    HadrienG authored Jan 31, 2017
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