Merge pull request #180 from SBRG/zk-rename-metanetx-translations

Rename bigg_models; MetaNetX synonyms; translation tables
SBRG · Mar 26, 2016 · 9c7cc22 · 9c7cc22
2 parents 8f34fca + 9388dbe
commit 9c7cc22
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diff --git a/.gitignore b/.gitignore
@@ -6,14 +6,14 @@
 .project
 env/
 gurobi.log
-BiGG_2.egg-info/
+*.egg-info/
 docs/schema/
 crontab.txt
-bigg2/static/models
-bigg2/static/dumped_models/
-bigg2/static/polished_models/
-bigg2/static/published_models/
+bigg_models/static/models
+bigg_models/static/namespace
 .#*
 *.log
 .cache/
+temp_data/
 *.swp
+TAGS
diff --git a/README.md b/README.md
@@ -12,12 +12,12 @@ https://github.com/SBRG/ome/blob/bigg/INSTALL.md
 
 Then, do the following to get BiGG Models up and running:
 
-1. Download the code with ```git clone [email protected]:SBRG/BIGG2.git```
-2. ```cd BIGG2```
+1. Download the code with ```git clone [email protected]:SBRG/bigg_models.git```
+2. ```cd bigg_models```
 3. Install with ```python setup.py develop``` (may need to sudo or add --user)
 4. Generate the PostgreSQL indices by running ```bin/make_database_indices```.
 4. Generate the static models by running ```bin/make_all_static_models```.
-5. Start the server with ```python -m bigg2.server --port=8910```
+5. Start the server with ```python -m bigg_models.server --port=8910```
 
 Testing BiGG Models
 ===================

diff --git a/bigg2/__init__.py b/bigg2/__init__.py
diff --git a/bigg2/check_running.sh b/bigg2/check_running.sh
diff --git a/bigg2/comment-notify.py b/bigg2/comment-notify.py
diff --git a/bigg2/crontab_check_running.txt b/bigg2/crontab_check_running.txt
diff --git a/bigg2/static/css/builder-embed-1.3.0.css b/bigg2/static/css/builder-embed-1.3.0.css
diff --git a/bigg2/static/js/script.js b/bigg2/static/js/script.js
diff --git a/bigg2/templates/comments.html b/bigg2/templates/comments.html
diff --git a/bigg2/templates/escher_script.html b/bigg2/templates/escher_script.html
diff --git a/bigg2/version.py b/bigg2/version.py
diff --git a/bigg_models/__init__.py b/bigg_models/__init__.py
@@ -0,0 +1 @@
+from version import __version__, __api_version__
diff --git a/bigg2/curation.py → bigg_models/curation.py b/bigg2/curation.py → bigg_models/curation.py
diff --git a/bigg2/db_analysis/__init__.py → bigg_models/db_analysis/__init__.py b/bigg2/db_analysis/__init__.py → bigg_models/db_analysis/__init__.py
diff --git a/bigg2/db_analysis/db_analysis.py → bigg_models/db_analysis/db_analysis.py b/bigg2/db_analysis/db_analysis.py → bigg_models/db_analysis/db_analysis.py
diff --git a/bigg2/drop_indices.sql → bigg_models/drop_indices.sql b/bigg2/drop_indices.sql → bigg_models/drop_indices.sql
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		@@ -0,0 +1 @@
		from version import __version__, __api_version__