diff --git a/README.md b/README.md
index 598b9c1c9e846089ec53b962074b8240c140a741..e26f3466673e74aa4db0f44440317163c7d120f2 100644
--- a/README.md
+++ b/README.md
@@ -69,6 +69,8 @@ Make sure that with every change/recompilation you make in `binary_c`, you also
### Documentation
Look in the docs/ directory. Within the build/html/ there is the html version of the documentation. The documentation is also hosted on http://personal.ph.surrey.ac.uk/~ri0005/doc/binary_c/binary_c.html but only for the most recent stable release.
+This documentation is hosted on gitlab-pages through a gitlab-runner that executes the contents of `.gitlab-ci.yml`. The runner copies the contents of `docs/build/html` to `public/`.
+
## Development:
If you want to contribute to the code, then it is recommended that you install the packages in `development_requirements.txt`:
diff --git a/VERSION b/VERSION
index a602fc9e283389306d606c164ce73ac338999373..b0bb878545dc6dc410a02b0df8b7ea9fd5705960 100644
--- a/VERSION
+++ b/VERSION
@@ -1 +1 @@
-0.9.4
+0.9.5
diff --git a/binarycpython/__init__.py b/binarycpython/__init__.py
index 5d82f47b270e7d0a3e133c27d941ba69ae8ce0fa..50bf4c641de7e69b653bb5169adf8650191ea600 100644
--- a/binarycpython/__init__.py
+++ b/binarycpython/__init__.py
@@ -1,7 +1,5 @@
"""
Init function for binarycpython module
-
-Make population accessible here
"""
from binarycpython.utils.grid import Population
diff --git a/binarycpython/utils/ensemble.py b/binarycpython/utils/ensemble.py
index 4c27268e0d52612a593c33515948525a9ae5549f..a1d3e7b5c47190c6400b21d42ace899f773cc863 100644
--- a/binarycpython/utils/ensemble.py
+++ b/binarycpython/utils/ensemble.py
@@ -115,7 +115,12 @@ def ensemble_file_type(filename):
def load_ensemble(
- filename, convert_float_keys=True, select_keys=None, timing=False, flush=False
+ filename,
+ convert_float_keys=True,
+ select_keys=None,
+ timing=False,
+ flush=False,
+ quiet=False
):
"""
Function to load an ensemeble file, even if it is compressed,
@@ -129,7 +134,8 @@ def load_ensemble(
# open the file
# load with some info to the terminal
- print("Loading JSON...", flush=flush)
+ if quiet == False:
+ print("Loading JSON...", flush=flush)
# open the ensemble and get the file type
file_object = open_ensemble(filename)
@@ -142,47 +148,64 @@ def load_ensemble(
)
sys.exit()
- with Halo(text="Loading", interval=250, spinner="moon", color="yellow"):
+ if quiet == True:
tstart = time.time()
- _loaded = False
-
- def _hook(obj):
- """
- Hook to load ensemble
- """
-
- nonlocal _loaded
- if _loaded is False:
- _loaded = True
- print(
- "\nLoaded {} data, now putting in a dictionary".format(filetype),
- flush=True,
- )
- return obj
-
if filetype == "JSON":
- # orjson promises to be fast, but it doesn't seem to be
- # and fails on "Infinity"... oops
- # data = orjson.loads(file_object.read())
-
- # simplejson is faster than standard json and "just works"
- # on the big Moe set in 37s
- data = simplejson.load(file_object, object_hook=_hook)
+ data = simplejson.load(file_object)
file_object.close()
-
- # standard json module
- # on the big Moe set takes 42s
- # data = json.load(file_object,
- # object_hook=_hook)
elif filetype == "msgpack":
data = msgpack.load(file_object, object_hook=_hook)
file_object.close()
-
if timing:
print(
"\n\nTook {} s to load the data\n\n".format(time.time() - tstart),
flush=True,
)
+ else:
+ with Halo(text="Loading", interval=250, spinner="moon", color="yellow"):
+ tstart = time.time()
+ _loaded = False
+
+ def _hook(obj):
+ """
+ Hook to load ensemble
+ """
+
+ nonlocal _loaded
+ if _loaded is False:
+ _loaded = True
+ print(
+ "\nLoaded {} data, now putting in a dictionary".format(filetype),
+ flush=True,
+ )
+ return obj
+
+ if filetype == "JSON":
+ # orjson promises to be fast, but it doesn't seem to be
+ # and fails on "Infinity"... oops
+ # data = orjson.loads(file_object.read())
+
+ # simplejson is faster than standard json and "just works"
+ # on the big Moe set in 37s
+ if quiet == False:
+ data = simplejson.load(file_object, object_hook=_hook)
+ else:
+ data = simplejson.load(file_object)
+ file_object.close()
+
+ # standard json module
+ # on the big Moe set takes 42s
+ # data = json.load(file_object,
+ # object_hook=_hook)
+ elif filetype == "msgpack":
+ data = msgpack.load(file_object, object_hook=_hook)
+ file_object.close()
+
+ if timing:
+ print(
+ "\n\nTook {} s to load the data\n\n".format(time.time() - tstart),
+ flush=True,
+ )
# strip non-selected keys, if a list is given in select_keys
if select_keys:
diff --git a/binarycpython/utils/grid.py b/binarycpython/utils/grid.py
index a55f231ca31c2b8aed15e13b40ca444d538de176..48e66171195d1c9b21d0424a7b0f3958f6ff9a31 100644
--- a/binarycpython/utils/grid.py
+++ b/binarycpython/utils/grid.py
@@ -1267,12 +1267,10 @@ class Population(
for output_dict in iter(result_queue.get, sentinel):
if output_dict:
# don't let Xinit be added
- if (
- "ensemble_results" in combined_output_dict
- and "ensemble" in combined_output_dict["ensemble_results"]
- and "Xinit" in combined_output_dict["ensemble_results"]["ensemble"]
- ):
+ try:
del combined_output_dict["ensemble_results"]["ensemble"]["Xinit"]
+ except:
+ pass
# merge dicts
combined_output_dict = merge_dicts(
diff --git a/install.sh b/install.sh
index 42f91d61275ba2e570618dc5aaf7f08a45d9f5c3..f3204fd55025a2f06ec3ee9f9110cd750ee060af 100755
--- a/install.sh
+++ b/install.sh
@@ -13,7 +13,7 @@ echo "installing binarcpython version $VERSION_NUMBER"
# do stuff...
$PYTHON setup.py clean
-$PIP uninstall binarycpython
+$PIP uninstall -y binarycpython
$PYTHON setup.py build --force
$PYTHON setup.py sdist
$PIP install -v dist/binarycpython-$VERSION_NUMBER.tar.gz