Allow creation of genomedata containers without sequence

[EricR86]

From hoffman...@gmail.com on November 10, 2009 18:14:53

This would allow people to get started more quickly when they don't need
the sequence. One place to get the parameters of the genome from would be
the AGP of the assembly (for example,
< ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh37/Primary_Assembly/assembled_chromosomes/AGP/> ).
Another would be a simple list of the size of each chromosome. This would
result in the creation of chromosomes with only one supercontig.

Original issue: http://code.google.com/p/genomedata/issues/detail?id=2

[EricR86]

From hoffman...@gmail.com on November 10, 2009 15:15:07

Status: Accepted

[EricR86]

From hoffman...@gmail.com on November 15, 2010 15:30:49

What should the interface for this be? I can see a few options:

1. Overload genomedata-load-seq to include this functionality.
2. Add a new genomedata-no-seq command instead.
3. Make a genomedata-create command to replace genomedata-load-seq.

I'm leaning towards 3.

Owner: hoffman.mm

[EricR86]

From hoffman...@gmail.com on January 27, 2013 07:19:24

This is implemented in the next release.

Status: Verified