ViralMSA v1.1.34

• Fixed bug where read mapper check was being performed even if user provides a SAM file
  • Typically, this doesn't break if the user has Minimap2 installed (even though ViralMSA won't be using it)
  • However, if the user doesn't have Minimap2 installed, ViralMSA will crash (even though Minimap2 isn't necessary)
  • Now, the read mapper check is only performed if the user specifies a FASTA file as input
  • Thanks, @daniel-ji!

ViralMSA v1.1.33

• Added support for SAM input (e.g. if user already mapped sequences to reference)
• Moved log messages to standard error instead of standard output
• Added support for writing FASTA alignment to standard output instead of to file
• Added quiet mode (suppress log output)
  • Still writes log to file in output directory

ViralMSA v1.1.32

• Fixed empty ViralMSA log file in output directory

ViralMSA v1.1.31

• Added safety check for missing Biopython

ViralMSA v1.1.30

• Added Denguevirus 1-4 reference genomes

ViralMSA v1.1.29

• Updated ViralMSA web app
  • Example dataset can be selected via convenient button
  • Changed progress indicator to spinning instead of dots
  • Fixed bug with progress indicator persisting after execution completion

ViralMSA v1.1.28

• Added web app: https://niema.net/ViralMSA

ViralMSA v1.1.27

• Updated subprocess imports to make it a bit more WASM-friendly for future web app

ViralMSA v1.1.26

• Fixed bug that broke downloading ref genome from NCBI

ViralMSA v1.1.25

• Restructured code to be more WebASM-friendly for potential future web app