Merge pull request datajoint#69 from kabilar/main

Update requirements, changelog, and version for release

CHANGELOG.md

@@ -3,23 +3,28 @@
 Observes [Semantic Versioning](https://semver.org/spec/v2.0.0.html) standard and 
 [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) convention.
 
+## 0.1.0 - 2022-06-02
+
++ Update - Docker and Compose files
++ Add - NWB export pytests
+
 ## 0.1.0a4 - 2022-01-21
-### Added
-+ Created Docker and Compose files for active development.
+
++ Add - Create Docker and Compose files for active development.
 
 ## 0.1.0a3 - 2022-01-18
-### Updated
-+ Updated notebooks
-+ Moved instructions to [datajoint-elements/install.md](
+
++ Update - Notebooks
++ Update - Move instructions to [datajoint-elements/install.md](
      https://github.com/datajoint/datajoint-elements/blob/main/install.md).
-+ Updated Docker and Compose files for new base image and added options to install 
++ Update - Docker and Compose files for new base image and added options to install 
 specific forks for tests.
 
 ## 0.1.0a2 - 2021-04-12
-### Updated
-+ Updated tests
-+ Changed version to reflect release phase.
+
++ Update - Pytests
++ Update - Change version to reflect release phase.
 
 ## 0.1.1 - 2021-03-26
-### Added
-+ Added version
+
++ Add - Version

docker/Dockerfile.dev

@@ -8,25 +8,25 @@ RUN /entrypoint.sh echo "Installed dependencies."
 RUN mkdir /main/element-lab \
           /main/element-animal \
           /main/element-session \
-          /main/element-array-ephys \
           /main/element-interface \
+          /main/element-array-ephys \
           /main/workflow-array-ephys
 
 # Copy user's local fork of elements and workflow
 COPY --chown=anaconda:anaconda ./element-lab /main/element-lab
 COPY --chown=anaconda:anaconda ./element-animal /main/element-animal
 COPY --chown=anaconda:anaconda ./element-session /main/element-session
-COPY --chown=anaconda:anaconda ./element-array-ephys /main/element-array-ephys
 COPY --chown=anaconda:anaconda ./element-interface /main/element-interface
+COPY --chown=anaconda:anaconda ./element-array-ephys /main/element-array-ephys
 COPY --chown=anaconda:anaconda ./workflow-array-ephys /main/workflow-array-ephys
 
 # Install packages
 RUN pip install -e /main/element-lab
 RUN pip install -e /main/element-animal
 RUN pip install -e /main/element-session
+RUN pip install -e /main/element-interface
 RUN pip install -e /main/element-array-ephys
 RUN pip install -e /main/workflow-array-ephys
-RUN pip install -e /main/element-interface
 RUN pip install -r /main/workflow-array-ephys/requirements_test.txt
 
 WORKDIR /main/workflow-array-ephys

docker/Dockerfile.test

@@ -22,18 +22,21 @@ WORKDIR /main/workflow-array-ephys
 RUN mkdir /main/element-lab \
           /main/element-animal \
           /main/element-session \
+          /main/element-interface \
           /main/element-array-ephys \
           /main/workflow-array-ephys
 
 COPY --chown=anaconda:anaconda ./element-lab /main/element-lab
 COPY --chown=anaconda:anaconda ./element-animal /main/element-animal
 COPY --chown=anaconda:anaconda ./element-session /main/element-session
+COPY --chown=anaconda:anaconda ./element-interface /main/element-interface
 COPY --chown=anaconda:anaconda ./element-array-ephys /main/element-array-ephys
 COPY --chown=anaconda:anaconda ./workflow-array-ephys /main/workflow-array-ephys
 
 RUN pip install -e /main/element-lab
 RUN pip install -e /main/element-animal
 RUN pip install -e /main/element-session
+RUN pip install -e /main/element-interface
 RUN pip install -e /main/element-array-ephys
 RUN rm -f /main/workflow-array-ephys/dj_local_conf.json
 

docker/docker-compose-dev.yaml

@@ -28,6 +28,7 @@ services:
       - ../../element-lab:/main/element-lab
       - ../../element-animal:/main/element-animal
       - ../../element-session:/main/element-session
+      - ../../element-interface:/main/element-interface
       - ../../element-array-ephys:/main/element-array-ephys
       - ../../element-interface:/main/element-interface
       - ..:/main/workflow-array-ephys

docker/docker-compose-test.yaml

@@ -42,6 +42,7 @@ services:
       - ../../element-lab:/main/element-lab
       - ../../element-animal:/main/element-animal
       - ../../element-session:/main/element-session
+      - ../../element-interface:/main/element-interface
       - ../../element-array-ephys:/main/element-array-ephys
       - ..:/main/workflow-array-ephys
     depends_on:

notebooks/01-configure.ipynb

@@ -26,7 +26,7 @@
    "outputs": [],
    "source": [
     "import os\n",
-    "os.chdir('..')"
+    "if os.path.basename(os.getcwd())=='notebooks': os.chdir('..')"
    ]
   },
   {

notebooks/02-workflow-structure-optional.ipynb

@@ -31,7 +31,7 @@
    "outputs": [],
    "source": [
     "import os\n",
-    "os.chdir('..')"
+    "if os.path.basename(os.getcwd())=='notebooks': os.chdir('..')"
    ]
   },
   {

requirements.txt

@@ -1,7 +1,7 @@
 datajoint>=0.13.0
-element-array-ephys==0.1.0b0
+element-array-ephys>=0.1.1
 element-lab>=0.1.0b0
-element-animal==0.1.0b0
-element-session==0.1.0b0
+element-animal>=0.1.0b0
+element-session>=0.1.0b0
 element-interface @ git+https://github.com/datajoint/element-interface.git
-ipykernel==6.0.1
+ipykernel>=6.0.1

user_data/sessions.csv

@@ -1,2 +1,3 @@
-subject,session_dir
-subject6,/tmp/test_data/workflow-array-ephys-test-set/subject6/session1/
+subject,session_dir,session_note,user
+subject5,subject5/session1/,Successful data collection,User1
+subject6,subject6/session1/,Ambient temp abnormally low,User2

user_data/subjects.csv

@@ -1,2 +1,3 @@
 subject,sex,subject_birth_date,subject_description
-subject6,M,2020-01-03,hneih_E105
+subject5,F,2020-01-01 00:00:01,
+subject6,F,2020-01-01 00:00:01,

workflow_array_ephys/version.py

@@ -2,4 +2,4 @@
 Package metadata
 Update the Docker image tag in `docker-compose.yaml` to match
 """
-__version__ = '0.1.0a4'
+__version__ = '0.1.0'