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Merge pull request #15 from solgenomics/topic/add_stock_file
2011-11-08
Naama Mend
a
u
p
dat
e
DBIx::Cla
s
s phen
o
me schema
c
las
s
es
commit
|
commitdiff
|
tree
2011-11-07
Naa
m
a M
e
nda
M
e
rge b
r
anch 'ma
s
t
er'
i
nto topic/locus_
c
ontroll
e
r
commit
|
commitdiff
|
tree
2011-11-07
Naama Men
d
a
resolved
c
on
f
lict
commit
|
commitdiff
|
tree
2011-11-07
Naama Men
d
a
a
d
ded accessor
s
for
g
enome_locu
s
name field
commit
|
commitdiff
|
tree
2011-11-09
Naa
m
a Me
n
da
disabling a
u
tocommit
commit
|
commitdiff
|
tree
2011-11-07
N
aama Menda
patch for
addi
n
g a
locu
s
field to the
l
ocus table
.
.
.
.
commit
|
commitdiff
|
tree
2011-11-06
N
a
ama Menda
add
i
ng phenotype props to
s
olcap phenotypes
commit
|
commitdiff
|
tree
2011-10-30
N
aama Menda
using dbc->
d
bh instead of CXGM::
D
B::Connection
commit
|
commitdiff
|
tree
2011-10-15
Na
a
ma Menda
ob
s
oleting locus alias
i
f the ITAG id is just the
a
l
i
as
commit
|
commitdiff
|
tree
2011-10-15
Naama Men
d
a
script for
o
bsole
t
i
n
g
I
T
A
G loci
fro
m
phenome
.
locus
commit
|
commitdiff
|
tree
2011-10-15
Na
a
m
a Mend
a
remov
i
ng trailing spaces f
r
om unit name
commit
|
commitdiff
|
tree
2011-10-15
Naama Menda
remo
v
ing
trail
i
ng
spac
e
sfromuni
t
name
commit
|
commitdiff
|
tree
2011-10-14
N
a
ama M
e
n
da
fixin
g
b
u
g in merg
e
_
l
ocus function
whe
n
m
erged
l
ocus
.
.
.
commit
|
commitdiff
|
tree
2011-10-12
Na
a
ma Menda
making
sure pl
a
nt hait terms are fou
n
d
commit
|
commitdiff
|
tree
2011-10-12
Naam
a
M
e
nda
looking
at dire
c
t child terms
for qua
l
itativ
e
terms
commit
|
commitdiff
|
tree
2011-10-11
N
a
ama
Menda
load
i
ng qu
a
litativ
e
terms
correctly
commit
|
commitdiff
|
tree
2011-10-11
Naama
Mend
a
adding unit ontology
cvter
m
s to the phenotyeps
commit
|
commitdiff
|
tree
2011-10-03
Naa
m
a Menda
just warni
n
g if parent
s
tock is
not
found
commit
|
commitdiff
|
tree
2011-10-03
N
a
ama
M
enda
typo
commit
|
commitdiff
|
tree
2011-10-03
Naam
a
Menda
p
arsing more
options
for s
o
lcap
imag
e
f
i
les
commit
|
commitdiff
|
tree
2011-10-02
Naama Menda
f
i
nd the year of
the proect f
r
om th
e
me
t
adata fil
e
commit
|
commitdiff
|
tree
2011-10-02
Naama Mend
a
year sh
o
u
l
d be a pr
o
perty
o
f
the project
commit
|
commitdiff
|
tree
2011-10-02
Naama
M
enda
searcg is better than fi
n
d
h
ere
commit
|
commitdiff
|
tree
2011-09-27
Naa
m
a Menda
typo
commit
|
commitdiff
|
tree
2011-09-27
Naama Men
d
a
skip
p
ing for non-existing plots
commit
|
commitdiff
|
tree
2011-09-27
Naam
a
M
enda
checking correctly if an image is loade
d
a
nd if
w
a
s
.
.
.
commit
|
commitdiff
|
tree
2011-09-27
Naama
M
e
n
da
typo
commit
|
commitdiff
|
tree
2011-09-27
Naam
a
Menda
b
e
t
t
er p
r
inting of error me
s
sages
commit
|
commitdiff
|
tree
2011-09-27
Naama Me
n
da
added a check for exis
t
ing stock-image
l
inks
commit
|
commitdiff
|
tree
2011-09-23
Naama
M
enda
last typo?
commit
|
commitdiff
|
tree
2011-09-23
Naama
M
enda
typo
commit
|
commitdiff
|
tree
2011-09-23
Naama Menda
typo
commit
|
commitdiff
|
tree
2011-09-23
N
aama M
e
nda
added exception for plant
i
ng
d
ate
p
rop
e
rty
commit
|
commitdiff
|
tree
2011-09-23
Naam
a
Menda
adde
d
year option for finding un
i
que plot name
s
commit
|
commitdiff
|
tree
2011-09-18
Naama
Menda
setti
n
g
the
transaction properly
commit
|
commitdiff
|
tree
2011-09-18
N
a
ama Menda
ch
e
cking if a
synonym
value was
already loaded
commit
|
commitdiff
|
tree
2011-09-17
Naama
M
enda
load
e
r for
s
olcap
i
m
a
ges
commit
|
commitdiff
|
tree
2011-09-17
Na
a
ma Menda
using txn_d
o
for
t
h
e
transaction
commit
|
commitdiff
|
tree
2011-09-16
Naam
a
Menda
mo
d
ified options for l
o
ading sol
c
ap TA data
commit
|
commitdiff
|
tree
2011-09-16
Na
a
ma Mend
a
added p
a
rsing of qualitative traits into t
h
e t
o
mato
.
.
.
commit
|
commitdiff
|
tree
2011-09-14
Naama Menda
fixed loadi
n
g stock owner into
the right place
commit
|
commitdiff
|
tree
2011-09-14
Na
a
ma M
e
nda
no n
e
ed to clone the dbh
commit
|
commitdiff
|
tree
2011-09-14
Naama Menda
added missing phenom
e
DBIC cla
s
ses
commit
|
commitdiff
|
tree
2011-09-14
Naama
M
e
nda
using CXGN::Phenome:
:
Schema fo
r
checking/inse
r
tin
g
.
.
.
commit
|
commitdiff
|
tree
2011-09-14
N
a
a
m
a
Menda
removed outdated lo
a
ding script
commit
|
commitdiff
|
tree
2011-09-14
Naama M
e
nda
upda
t
ed script for loading s
o
lca
p
accessions
commit
|
commitdiff
|
tree
2011-09-14
Naa
m
a Menda
updated CX
G
N::
P
henome::Schema c
l
a
s
ses
commit
|
commitdiff
|
tree
2011-09-13
Naama Menda
t
y
po
commit
|
commitdiff
|
tree
2011-09-04
Naam
a
M
enda
loading script for So
l
CAP p
o
tato
i
mages
commit
|
commitdiff
|
tree
2011-09-02
N
a
ama Men
d
a
lod
e
r for images from
S
andy Knapp
commit
|
commitdiff
|
tree
2011-08-31
Naa
m
a Menda
adding date prop to experim
e
n
t
s
commit
|
commitdiff
|
tree
2011-08-28
Naama
M
e
n
d
a
load
i
ng script f
o
r potato solcap data
.
Hopefully next
.
.
.
commit
|
commitdiff
|
tree
2011-08-25
Naama
M
e
n
da
l
oader for TAIR l
o
ci
commit
|
commitdiff
|
tree
2011-06-19
Naama Menda
updated
s
olc
a
p s
t
uff for
r
eload
i
ng the p
o
tato 2009
.
.
.
commit
|
commitdiff
|
tree
2011-05-09
Naama Menda
patch for ch
a
n
g
es in C
h
ado ND schema
commit
|
commitdiff
|
tree
2011-04-22
Naama Menda
db pa
t
ch
for granting de
l
e
t
e on
m
etad
a
ta t
o
we
b
_usr
.
.
.
commit
|
commitdiff
|
tree
2011-04-21
N
a
a
m
a Me
n
da
updated DBIx c
l
asses , no more phenome
.
phenotype table
commit
|
commitdiff
|
tree
2011-04-18
Naama
M
e
nd
a
skipping metadata in
s
ert if one of
t
h
e
F
Ks is
null
commit
|
commitdiff
|
tree
2011-04-17
Naama Menda
adding w
e
b_usr permissions to metadata
t
ab
l
e
commit
|
commitdiff
|
tree
2011-04-17
N
aama Menda
typo in que
r
y
commit
|
commitdiff
|
tree
2011-04-17
Naama Menda
forgot to a
d
d
web_u
s
r permissions
commit
|
commitdiff
|
tree
2011-04-17
Naama Menda
usi
n
g stock_allele and stock
_
image inst
e
ad of
stockprop
commit
|
commitdiff
|
tree
2011-04-16
Naama Menda
db patch for mig
r
ating stock imag
e
, allel
e
, and owner
.
.
.
commit
|
commitdiff
|
tree
2011-04-02
Naama
M
en
d
a
re
f
actoring functions th
a
t use individuals
.
N
ow we
.
.
.
commit
|
commitdiff
|
tree
2011-04-01
Naama Menda
typos
commit
|
commitdiff
|
tree
2011-04-01
Naam
a
Menda
del
e
ting fi
r
st
e
xisting alle
l
e
links
commit
|
commitdiff
|
tree
2011-04-01
Naa
m
a M
e
n
da
db patch for
c
orrectly storing all
alleles
li
n
ked wit
h
.
.
.
commit
|
commitdiff
|
tree
2011-04-01
Naama Menda
s
electing all alleles,
inc
l
u
d
ing
d
efaults o
n
e
s
commit
|
commitdiff
|
tree
2011-04-01
Na
a
m
a
Mend
a
r
e
moved se
a
rchin
g
l
o
ci by
s
t
ock phenotype
s
.
To d
o
this
.
.
.
commit
|
commitdiff
|
tree
2011-04-02
Naama Menda
added an option to
p
ass the image_path
.
this lets run
.
.
.
commit
|
commitdiff
|
tree
2011-03-29
Naama M
e
nda
f
o
rgot to allow duplicate va
l
ues
.
Without this multiple
.
.
.
commit
|
commitdiff
|
tree
2011-04-01
Naama
Menda
polis
h
ed loading script for
lycotill im
a
ges
commit
|
commitdiff
|
tree
2011-03-28
Naama Menda
loading script for lycot
i
ll accessions
commit
|
commitdiff
|
tree
2011-03-23
Na
a
ma Menda
dbpatch for fixing locus_mark
e
r FK
commit
|
commitdiff
|
tree
2011-03-22
Naama Menda
added
an interim
functi
o
n
for
g
e
tting popula
t
i
on object
.
.
.
commit
|
commitdiff
|
tree
2011-03-17
Naam
a
Me
n
da
d
b
patch for
m
o
v
ing stock annotati
o
ns from sto
c
k_dbxref
.
.
.
commit
|
commitdiff
|
tree
2011-03-10
Naa
m
a Menda
added mis
s
ing de
p
en
d
ency to db
p
a
thc
commit
|
commitdiff
|
tree
2011-03-09
Naama Menda
silly ty
p
o in dbpatch
commit
|
commitdiff
|
tree
2011-03-09
N
a
ama Menda
db patch for
t
he miss
i
ng link to stock_id
f
rom the
.
.
.
commit
|
commitdiff
|
tree
2011-03-04
Naama Menda
silly ty
p
o
commit
|
commitdiff
|
tree
2011-03-03
Naa
m
a M
e
nd
a
fix
e
d loadi
n
g
exper
i
men
t
ids for each stock pheno
t
y
ped
commit
|
commitdiff
|
tree
2011-02-07
Naama Me
n
da
db path f
o
r adding und
e
f option to
allele mode_o
f
_inheritan
c
.
.
.
commit
|
commitdiff
|
tree
2010-12-08
N
aama M
e
n
d
a
filtering obsolete loci and
n
on-cu
r
re
n
t uni
g
e
nes
commit
|
commitdiff
|
tree
2010-12-01
Na
a
ma Menda
patch
f
or u
p
da
t
ing the unique c
o
nstraint on nd_exper
i
men
t
_ph
.
.
.
commit
|
commitdiff
|
tree
2010-11-24
N
aama Mend
a
upd
a
ting chromosome number for loci w
i
th itag m
a
tches
commit
|
commitdiff
|
tree
2010-11-24
Naam
a
Menda
f
ix
e
d typos i
n
db pa
t
ch
commit
|
commitdiff
|
tree
2010-11-24
Naama Menda
setting itag s
y
nonym
prefe
r
r
ed=f
commit
|
commitdiff
|
tree
2010-11-24
Naama Menda
loading script for IT
A
G2 - lo
c
i matc
h
e
s
commit
|
commitdiff
|
tree
2010-11-24
Naama Menda
got rid of
mo
r
e last_insert_id calling
commit
|
commitdiff
|
tree
2010-11-24
Naam
a
Menda
getting
rid of silly last_ins
e
r
t_id
commit
|
commitdiff
|
tree
2010-11-05
N
a
ama Menda
another
fix f
o
r q
u
e
r
y r
e
t
u
rning
d
atabase id
commit
|
commitdiff
|
tree
2010-11-05
N
aama Men
d
a
fix
e
d
insert queries to return the database
id, sinc
e
.
.
.
commit
|
commitdiff
|
tree
2010-11-05
Naama Menda
fixed a bug in g
e
tting databas
e
id
a
fter an i
n
sert
commit
|
commitdiff
|
tree
2010-11-03
Naama
M
enda
updated
v
ersion for BCS required for P
h
enome
commit
|
commitdiff
|
tree
2010-11-01
N
aam
a
M
end
a
replaced find
w
ith create_with for
a
c
c
essi
o
n cvterm
commit
|
commitdiff
|
tree
2010-10-29
Naam
a
Me
n
da
added
stock_d
b
x
refprop table to db patc
h
.
commit
|
commitdiff
|
tree
2010-10-29
Naama Men
d
a
fo
r
got to use Try::Tiny
commit
|
commitdiff
|
tree
2010-10-29
N
a
ama
Menda
typo
commit
|
commitdiff
|
tree
2010-10-29
Naama
Menda
f
ixe
d
popula
t
ion
update function
.
commit
|
commitdiff
|
tree
2010-10-28
Naama
M
end
a
db patch
e
s
should work
r
igh
t
now, w
i
th l
o
ading stock_id
.
.
.
commit
|
commitdiff
|
tree
next