unknown allele type in PHAF files: nucleotide deletion

[kimrutherford]

Hi Val.

This PHAF file:

pombe-embl/external_data/phaf_files/chado_load/htp_phafs/PMID_23697806_phaf.tsv

has two rows with unknown allele types: "nucleotide deletion" and "nucleotídeos deletion":

SPAC14C4.01c        FYPO:0002177    49-203  Null    975 h+          h+ ura4-D18 leu1-32 ade6-M210           atg43-1         nucleotide deletion     Microscopy      FYECO:0000005,FYECO:0000137   FYPO_EXT:0000001                        PMID:23697806   4896    20120101
SPAC14C4.01c        FYPO:0002060    49-203  Null    975 h+          h+ ura4-D18 leu1-32 ade6-M210           atg43-1         nucleotídeos deletion   Microscopy      FYECO:0000005,FYECO:0000137                           PMID:23697806   4896    20120101

There is also a row in htp_phafs/PMID_27887640_phaf.tsv with the same issue (same allele):

SPAC14C4.01c        FYPO:0000251    49-203  null    972 h-          H1::hygr                                nucleotide deletion     Cell growth assay       FYECO:0000148,FYECO:0000005  FYPO_EXT:0000003         PMID:27887640   4896    2017-03-08

Should I change all those to partial_nucleotide_deletion?

The allele in htp_phafs/PMID_27887640_phaf.tsv is also missing a name. From the other file it looks like it should be "atg43-1". Should I add that too?

[ValWood]

Yes please!

[kimrutherford]

OK, done for Friday night's load.