Version 0.3.0

Major Changes

• This release is now compatible with the new DMS PostgreSQL database.
  • Function get_db_connection added to enable more flexible database changes (if needed in the future)
  • As a side-effect, intricate macOS installation instructions are no longer required and were removed.
• get_datasets_by_data_package now parallelized (thank you @skelly001)

Auto-generated Contributions

• remove log2 zero center transform by @skelly001 in #26
• Revert "expose arguments from make_id_to_quant_scan_link_table and se… by @skelly001 in #28
• Update DESCRIPTION by @vladpetyuk in #31
• Restructure README.md instructions and add Oct '23 caveat by @Ben-Drucker in #34 [caveat no longer needed]
• make read_MSstats_from_MSFragger_job dependent on MSnSet.utils::read_… by @skelly001 in #40
• parallelize get_datasets_by_data_package by @skelly001 in #38
• stop cluster when function exits abnormally by @skelly001 in #42
• Alterations to DMS-related functions after PostgreSQL was adopted by @Ben-Drucker in #43

Full Commit Changelog

v0.2.0...V0.3.0

v0.2.0

• Update read_msfragger_from_DMS
• Add read_MSstats_from_MSFragger_job to create an MSnSet from an MSFragger-generated MSstats.csv file.
• Fix errors caught by devtools::check()
• Modify examples to only run if connection to PNNL's DMS is successful
• Minor documentation updates
• Implement R-CMD-check and pkgdown GitHub actions. The former only currently runs on a Windows machine, due to needing ODBC drivers for Mac and Unix. pkgdown runs when new releases are generated, though it can also be initiated manually.