NCBI Mass Sequence Downloader v5.2

Bugfix release

Bugs fixed

• Adds a new failsafe for queries that don't return what the user expected
• Adds more regular expressions to match esearch accession numbers with those present in the FASTA deflines

NCBI Mass Sequence Downloader v5.1

Bugfix release

Bugs fixed

• Fixes a bug with batches and overwriting the FASTA file when downloading very large queries.

NCBI Mass Sequence Downloader v5.0

Major new release!

New features:

• Drop the Entrez fork from biopython
• NCBI Mass Sequence Downloader now uses the Requests library
• Much improved handling of server side errors
• Threading - downloads are now performed in parallel, increasing the speed in ~8x
• New command line option -nv: Use it to disable accession number verification after the download is finished (not implemented in the GUI version)

OSX Binaries will not be released for this version.

NCBI Mass Sequence Downloader v4.4

The release contains several new features:

• Able to handle sequences with different names in the record and in the FASTA file;
• Faster startup;
• Updates entrez.py to the latest upstream;
• Improved server error handling

Binaries for OSX should be available soon

NCBI Mass Sequence Downloader v4.3

The release corrects a bug when downloading very large sets of data using the new "ACC" rettype.

Binaries for OSX should be available soon

NCBI Mass Sequence Downloader v4.2

This release merges changes from upstream biopython project to cope with the new NCBI API.

NCBI Mass Sequence Downloader v4.1

This release improves the way we handle the deprecation of GIs from NCBI.
Since the new API is already woking (idtype=acc), we now use this parameter to get out ID list, hence skipping the hackish translation step.
That is basically all this release brings.

Binaries for OSX to be released soon (hopefully)

NCBI Mass Sequence Downloader v4.0

This release copes with the deprecation of GIs from NCBI.
The API is not yet correctly used, and a little "hack" has been put in place to translate GI IDs to Accession numbers, which can take some time depending on what is being downloaded, but the official sanctioned way of doing things (idtype=acc) is not yet working.

Binaries to be released soon

NCBI Mass Sequence Downloader v3.2

This release merges upstream changes to Entrez.

• Better PEP8 conformace
• Move from http to https for using e-utils

OSX Binaries available soon

NCBI Mass Sequence Downloader v3.1

In this release argparse was implemented for the CLI version.
This meant some changes around the codebase and some more documentation changes.

Binaries for OSX will be released soon.