[BBS 237] - Fix naming (#231)

Co-authored-by: Francesco Casalegno <francesco.casalegno@gmail.com>
BlueBrain · Feb 12, 2021 · 8734335 · 8734335
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diff --git a/.dockerignore b/.dockerignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/.dvc/.gitignore b/.dvc/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/.dvcignore b/.dvcignore
@@ -2,7 +2,7 @@
 # the performance. Learn more at
 # https://dvc.org/doc/user-guide/dvcignore
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/.env.example b/.env.example
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/.github/ISSUE_TEMPLATE/bug-report.md b/.github/ISSUE_TEMPLATE/bug-report.md
@@ -33,7 +33,7 @@ A clear and concise description of what you expected to happen.
 
 Please provide the following information.
 
- - Blue Brain Search version (use `python -c "import bbsearch; print(bbsearch.__version__)"`):
+ - Blue Brain Search version (use `python -c "import bluesearch; print(bluesearch.__version__)"`):
  - OS (e.g., Linux):
  - How you installed Blue Brain Search (source, pip, ...):
  - Installation command you used (if compiling from source):

diff --git a/.gitignore b/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #
@@ -27,7 +27,7 @@
 !.env*.example
 
 # Version file
-/src/bbsearch/version.py
+/src/bluesearch/version.py
 
 # Byte-compiled / optimized / DLL files
 __pycache__/

diff --git a/.jenkins.sh b/.jenkins.sh
@@ -1,6 +1,6 @@
 #!/bin/bash
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #
@@ -56,7 +56,7 @@ tox -e docs
 tox -e py37 -- --color=yes
 
 if [ "$BUILD_DOCS" = true ]; then
-  .tox/docs/bin/python -c "import bbsearch; print('Installed version BBSearch: ', bbsearch.__version__)"
+  .tox/docs/bin/python -c "import bluesearch; print('Installed version Blue Brain Search: ', bluesearch.__version__)"
   cd docs || exit  # docs is already built by tox
   pip install -i https://bbpteam.epfl.ch/repository/devpi/simple docs-internal-upload
   docs-internal-upload --docs-path _build/html --metadata-path _build/html/metadata.md

diff --git a/.mypy.ini b/.mypy.ini
@@ -1,4 +1,4 @@
-;BBSearch is a text mining toolbox focused on scientific use cases.
+;Blue Brain Search is a text mining toolbox focused on scientific use cases.
 ;
 ;Copyright (C) 2020  Blue Brain Project, EPFL.
 ;

diff --git a/.travis.yml b/.travis.yml
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/README.md b/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 
@@ -600,7 +600,7 @@ Before installation, please make sure you have a recent `pip` installed (`>=19.1
 pip install --upgrade pip
 ```
 
-To install `bbsearch` run
+To install `bluesearch` run
 
 ```bash
 pip install .
@@ -626,7 +626,7 @@ $ docker run -it --rm bbs
 
 ## Documentation
 We provide additional information on the package in the documentation. It can be
-generated by sphinx. Make sure to install the `bbsearch` package with `dev`
+generated by sphinx. Make sure to install the `bluesearch` package with `dev`
 extras to get the necessary dependencies.
 
 ```bash

diff --git a/benchmarks/conftest.py b/benchmarks/conftest.py
@@ -1,6 +1,6 @@
 """Configuration of pytest benchmarks."""
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/benchmarks/test_benchmark_insert.py b/benchmarks/test_benchmark_insert.py
@@ -1,6 +1,6 @@
 """Benchmark INSERT operations through Pandas with and without transactions."""
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/benchmarks/test_benchmark_servers.py b/benchmarks/test_benchmark_servers.py
@@ -1,6 +1,6 @@
 """Benchmark server operations."""
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/annotations/README.md b/data_and_models/annotations/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/data_and_models/annotations/ner/.gitignore b/data_and_models/annotations/ner/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/annotations/ner/README.md b/data_and_models/annotations/ner/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/data_and_models/annotations/ner/patterns/.gitignore b/data_and_models/annotations/ner/patterns/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/annotations/ner/patterns/README.md b/data_and_models/annotations/ner/patterns/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/data_and_models/annotations/sentence_embedding/.gitignore b/data_and_models/annotations/sentence_embedding/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/annotations/sentence_embedding/README.md b/data_and_models/annotations/sentence_embedding/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/data_and_models/metrics/ner/.gitignore b/data_and_models/metrics/ner/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/metrics/ner/interrater/.gitignore b/data_and_models/metrics/ner/interrater/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/metrics/sentence_embedding/.gitignore b/data_and_models/metrics/sentence_embedding/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/models/ner/.gitignore b/data_and_models/models/ner/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/models/ner_er/.gitignore b/data_and_models/models/ner_er/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/models/sentence_embedding/.gitignore b/data_and_models/models/sentence_embedding/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/models/sentence_embedding/bsv/.gitignore b/data_and_models/models/sentence_embedding/bsv/.gitignore
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #

diff --git a/data_and_models/pipelines/README.md b/data_and_models/pipelines/README.md
@@ -1,5 +1,5 @@
 <!---
-BBSearch is a text mining toolbox focused on scientific use cases.
+Blue Brain Search is a text mining toolbox focused on scientific use cases.
 
 Copyright (C) 2020  Blue Brain Project, EPFL.
 

diff --git a/data_and_models/pipelines/ner/Dockerfile b/data_and_models/pipelines/ner/Dockerfile
@@ -1,4 +1,4 @@
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #
@@ -40,7 +40,7 @@ COPY prodigy-1.10.4-cp36.cp37.cp38-cp36m.cp37m.cp38-linux_x86_64.whl /bbs/tmp
 RUN pip install /bbs/tmp/prodigy-1.10.4-cp36.cp37.cp38-cp36m.cp37m.cp38-linux_x86_64.whl
 
 # Instal BlueBrainSearach -- revision can be a branch, sha, or tag
-ARG BBS_REVISION=v0.0.9
+ARG BBS_REVISION=v0.0.10
 ADD . /src
 WORKDIR /src
 RUN pip install git+file://$PWD@$BBS_REVISION

diff --git a/data_and_models/pipelines/ner/add_er.py b/data_and_models/pipelines/ner/add_er.py
@@ -1,6 +1,6 @@
 """Append an entity ruler to a spacy pipeline."""
 
-# BBSearch is a text mining toolbox focused on scientific use cases.
+# Blue Brain Search is a text mining toolbox focused on scientific use cases.
 #
 # Copyright (C) 2020  Blue Brain Project, EPFL.
 #
@@ -23,8 +23,8 @@
 import spacy
 import yaml
 
-from bbsearch.mining import remap_entity_type
-from bbsearch.utils import JSONL
+from bluesearch.mining import remap_entity_type
+from bluesearch.utils import JSONL
 
 parser = ArgumentParser()
 parser.add_argument(