Hi Stephanie They are warnings and can be ignored in this case. These are controlled by
etc/qualifier_types_gff and etc/feature_keys_gff I shall add in tmRNA and in feature_keys_gff and locus_tag. Regards Tim On 3/5/10 1:38 PM, "Stefanie Lager" <stefaniela...@gmail.com> wrote: > Hi, > > I'm testing different qualifiers and keys in GFF files, but I get > strange error messages when I try to open them in Artemis (possibly > because of my limited experience with the GFF format). The GFF file I > made look like: > > Test_0001 Glimmer3 CDS 421 1479 . + . transl_table=11;locus_tag=Test_0001;gene > =dnaA;product=Chromosomal > replication initiator protein dnaA > Test_R0001 Glimmer3 tmRNA 1469 2047 . + . locus_tag=Test_R0001;gene=ssrA;produ > ct=RNA > ssrA (tmRNA) > Test_0002 Glimmer3 CDS 2081 3220 . + . transl_table=11;locus_tag=Test_0002;pro > duct=predicted > ORF > Test_R0002 Glimmer3 tRNA 3210 3929 . + . locus_tag=Test_R0002;product=tRNA-Ala > Test_0003 Glimmer3 CDS 4310 4510 . - . transl_table=11;locus_tag=Test_0003;gen > e=swrA;product=pSwarming > motility protein swrA > Test_R0003 Glimmer3 rRNA 4532 4732 . + . locus_tag=Test_R0003;gene=rrf;product > =5S > ribosomal RNA > > And the error messages I get are: > > tmRNA is not a valid key > tRNA can't have a locus_tag as qualifier > rRNA can't have a gene as qualifier > > The later two warnings still seem to pass through, but it refuses to > accept tmRNA as a valid key, which I don't understand? > > Regards, > > Stefanie Lager > > _______________________________________________ > Artemis-users mailing list > Artemis-users@sanger.ac.uk > http://lists.sanger.ac.uk/mailman/listinfo/artemis-users _______________________________________________ Artemis-users mailing list Artemis-users@sanger.ac.uk http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
