added gtt-cat-alignments to perform concatenation of multiple-sequence alignment files rather than unix paste, as paste more prone to hitting a file-limit error when many hundreds or thousands of SCGs are being use
fix to slight miscalculation of estimated completeness when multiple gene-copies presen
limiting number of parallel downloads to 12 max in gtt-gen-SCG-HMMs to avoid potential write-speed p...
Check added by @vinisalazar looking for duplicates in user-provided mapping file, previously would r...
bug fix since addition of gtt-cat-alignments in 1.5.30, needed to adjust how the Partitions.txt file...
adding in faster alignment settings when working with >= 5000 genomes, and notice about it pointing ...
small, but important fix to rarely used -X parameter that was introduced in release 1.6.20 this is o...
adding helper script to remove all-gap seqs from alignment, gtt-remove-all-gap-seqs-from-alignmen
better checking and error message improvement when input accessions file format has problems, and wh...
Cancelling the run immediately and notifying user if -L desired lineage information was provided, bu...
added capability to start off with amino acid files of coding sequences as input improved handling o...
minor bug fix: modifying when gtotree terminates due to an input genome shorter than 100,000 bps to ...
fixing mistake in summary table reporting which genomes were retained in the final alignment Codebas...
added gtt-gen-SCG-HMMs to be able to generate new SCG-sets the same way those packaged with GToTree ...
Now default mode is to use only genes found in single-copy in a given genome, unless "best-hit mode"...
updated gtt-genbank-to-AA-seqs to handle those without locus_tags improved gtt-gen-iToL-ma
fix to slight miscalculation of estimated completeness when multiple gene-copies presen
limiting number of parallel downloads to 12 max in gtt-gen-SCG-HMMs to avoid potential write-speed p...
Check added by @vinisalazar looking for duplicates in user-provided mapping file, previously would r...
bug fix since addition of gtt-cat-alignments in 1.5.30, needed to adjust how the Partitions.txt file...
adding in faster alignment settings when working with >= 5000 genomes, and notice about it pointing ...
small, but important fix to rarely used -X parameter that was introduced in release 1.6.20 this is o...
adding helper script to remove all-gap seqs from alignment, gtt-remove-all-gap-seqs-from-alignmen
better checking and error message improvement when input accessions file format has problems, and wh...
Cancelling the run immediately and notifying user if -L desired lineage information was provided, bu...
added capability to start off with amino acid files of coding sequences as input improved handling o...
minor bug fix: modifying when gtotree terminates due to an input genome shorter than 100,000 bps to ...
fixing mistake in summary table reporting which genomes were retained in the final alignment Codebas...
added gtt-gen-SCG-HMMs to be able to generate new SCG-sets the same way those packaged with GToTree ...
Now default mode is to use only genes found in single-copy in a given genome, unless "best-hit mode"...
updated gtt-genbank-to-AA-seqs to handle those without locus_tags improved gtt-gen-iToL-ma
fix to slight miscalculation of estimated completeness when multiple gene-copies presen
limiting number of parallel downloads to 12 max in gtt-gen-SCG-HMMs to avoid potential write-speed p...
Check added by @vinisalazar looking for duplicates in user-provided mapping file, previously would r...
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