Skip to content
Projects
Groups
Snippets
Help
Loading...
Help
Support
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
DOGMA
Project overview
Project overview
Details
Activity
Releases
Cycle Analytics
Repository
Repository
Files
Commits
Branches
Tags
Contributors
Graph
Compare
Charts
Issues
0
Issues
0
List
Boards
Labels
Milestones
Merge Requests
0
Merge Requests
0
CI / CD
CI / CD
Pipelines
Jobs
Schedules
Charts
Wiki
Wiki
Snippets
Snippets
Members
Members
Collapse sidebar
Close sidebar
Activity
Graph
Charts
Create a new issue
Jobs
Commits
Issue Boards
Open sidebar
domainWorld
DOGMA
Commits
647e1790
Commit
647e1790
authored
Nov 06, 2018
by
Elias Dohmen
🎓
Browse files
Options
Browse Files
Download
Email Patches
Plain Diff
fix dicots-eudicots
parent
82592c13
Changes
2
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
with
3 additions
and
3 deletions
+3
-3
UserManual.pdf
UserManual.pdf
+0
-0
dogma.py
dogma.py
+3
-3
No files found.
UserManual.pdf
View file @
647e1790
No preview for this file type
dogma.py
View file @
647e1790
...
...
@@ -284,7 +284,7 @@ def score_single_transcriptome(annotation_file, outfile=None, max_dom_tup_len=3,
script_path
=
dirname
(
realpath
(
sys
.
argv
[
0
]))
at
=
annotype
if
hq_transcriptomes
in
(
'eukaryotes'
,
'mammals'
,
'insects'
,
'bacteria'
,
'archaea'
,
'arthropods'
,
'dicots'
,
'fungi'
,
'monocots'
,
'plants'
,
'vertebrates'
):
if
hq_transcriptomes
in
(
'eukaryotes'
,
'mammals'
,
'insects'
,
'bacteria'
,
'archaea'
,
'arthropods'
,
'
eu
dicots'
,
'fungi'
,
'monocots'
,
'plants'
,
'vertebrates'
):
hq_doms_path_list
=
[
ospjoin
(
script_path
,
'pfam'
+
pfam
,
'reference-sets'
,
hq_transcriptomes
,
filename
)
for
filename
in
listdir
(
ospjoin
(
script_path
,
'pfam'
+
pfam
,
'reference-sets'
,
hq_transcriptomes
))
if
...
...
@@ -363,7 +363,7 @@ def score_single_proteome(annotation_file, outfile=None, cutoff=2,
script_path
=
dirname
(
realpath
(
sys
.
argv
[
0
]))
at
=
annotype
if
hq_proteomes
in
(
'eukaryotes'
,
'mammals'
,
'insects'
,
'bacteria'
,
'archaea'
,
'arthropods'
,
'dicots'
,
'fungi'
,
'monocots'
,
'plants'
,
'vertebrates'
):
if
hq_proteomes
in
(
'eukaryotes'
,
'mammals'
,
'insects'
,
'bacteria'
,
'archaea'
,
'arthropods'
,
'
eu
dicots'
,
'fungi'
,
'monocots'
,
'plants'
,
'vertebrates'
):
hq_doms_path_list
=
[
ospjoin
(
script_path
,
'pfam'
+
pfam
,
'reference-sets'
,
hq_proteomes
,
filename
)
for
filename
in
listdir
(
ospjoin
(
script_path
,
'pfam'
+
pfam
,
'reference-sets'
,
hq_proteomes
))
if
(
isfile
(
ospjoin
(
script_path
,
'pfam'
+
pfam
,
'reference-sets'
,
hq_proteomes
,
filename
))
and
...
...
@@ -618,7 +618,7 @@ class SpeciesComparer(dict):
self
.
default_path
=
(
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'archaea'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'arthropods'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'bacteria'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'dicots'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'
eu
dicots'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'eukaryotes'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'fungi'
),
ospjoin
(
self
.
script_path
,
'reference-sets'
,
'insects'
),
...
...
Write
Preview
Markdown
is supported
0%
Try again
or
attach a new file
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment