restez - v2.1.3

BUG FIXES

• Fix error in processing GenBank release notes that arose in GenBank release 252 (#47)

Scientific Software - Peer-reviewed - R
Published by joelnitta over 3 years ago

restez - v2.1.2

BUG FIXES

• Fix spelling errors (4c0f9e48fb3e4d3351a4282d121b26f24d4241f1)
• Fix broken links (fddb4c2508975fe5bf5588da6aae5aca15f82a61)
• Other minor fixes for submission to CRAN (43795b48d6fa4ef4c7485dc0f1675d6a2e4fa574, 325b74ff3193bb94e9062bb6114a30b709324ca8)

Scientific Software - Peer-reviewed - R
Published by joelnitta over 3 years ago

restez - v2.1.1

BUG FIXES

• Fix incorrect warning about max_tries (#45)

Scientific Software - Peer-reviewed - R
Published by joelnitta over 3 years ago

restez - v2.1.0

BUG FIXES

• Fixed bug where restez_status() did not show correct file size (#32)
• Fixed frequent appearance of "Database is garbage-collected" warning (#33)
• Skip scanning of gzipped file if zgrep is not detected (3de4f95985c9e857eba276c323625c5c32461155)

DOCUMENTATION

• Add "Accession filter" to "Tips and Tricks" (1e30498f91b7efd765fb24243df686e10ee16977)
• Use markdown syntax for roxygen2 (ded1466af50562b88fa1bd349fdadbc1081495d3)

NEW FEATURES

• Change use of restez_connect() and restez_disconnect(): they are no longer user-facing, and instead get run internally for each instance of connecting to the local database. Also, connection to DB is made in read-only mode, which should allow for multiple simultaneous processes to access the DB (#33, #35)
• Add ncbi_acc_get() to enable easier querying of GenBank accession numbers (#37, #43)
• Add max_tries argument to db_download() to automatically re-try download in the event of a drop in internet connectivity (#36, #42)
• Add dnabin argument to gb_sequence_get() to return sequences in ape DNAbin format (#38, #44)

Scientific Software - Peer-reviewed - R
Published by joelnitta over 3 years ago

restez - v2.0.0

BUG FIXES

• Migrate to duckdb (#18, #26)

DOCUMENTATION

• Update to correct github repo (#28)

NEW FEATURES

• Add option to connect to database in read-only mode (91b85f6dd24153c16be1cf74a712e5349e31c679)

OTHER

• Switch CI from travis to github actions (9cc52e888accf489310b604b2636ffbfd0acecd7)

Scientific Software - Peer-reviewed - R
Published by joelnitta almost 4 years ago

restez - v1.1.0

Bug fixes

• Fix bug where single extremely long sequence caused db_create() to die (#14)

New features

• Add ability to filter database by accession number upon creation (#25)

Other

• Change maintainer to Joel Nitta

Scientific Software - Peer-reviewed - R
Published by joelnitta almost 4 years ago

restez - Accepted on ROpenSci and CRAN

Scientific Software - Peer-reviewed - R
Published by DomBennett over 7 years ago

restez - Post-review 1

The package has been reviewed by ROpenSci. The package has been updated to respond to these reviews.

Scientific Software - Peer-reviewed - R
Published by DomBennett over 7 years ago

restez - Pre-release for review

Pre-release version for review.

Scientific Software - Peer-reviewed - R
Published by DomBennett almost 8 years ago