Notes

Task

1. run mgescan at silo.cs.indiana.edu:38080
2. comparing the differences between outputs/ outputs-new/
3. multiple fa input files at galaxy
4. installation mgescan at any platform.

Failure log

1. missing hmmsearch 2.0 path
2. translate compile error
3. chr2L.fa is only acceptable?
4. d.pulex is scaffold - needs to be divided.
5. translate is broken - mysubstr is adding a wrong character 'H' e.g. ACTH
6. /scratch/lee212/input required

testing log

1. d. melanogaster download chr2L.fa: ftp://ftp.ensembl.org/pub/release-78/fasta/drosophila_melanogaster/dna/Drosophila_melanogaster.BDGP5.dna.chromosome.2L.fa.gz
2. s. purpuratus
3. d. pulex
4. C. intestinalis

Notes

1. too many outputs from galaxy?
   • gff3 is enough for ltr and nonltr