feat(neo4jsbml): enable encryption in url (#7)

* fix(github): syntax version * docs(readthedocs): spell check * feat(neo4jsbml): enable encryption in url
brsynth · Mar 28, 2023 · 2b5fc55 · 2b5fc55
1 parent fc4998a
commit 2b5fc55
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Showing 5 changed files with 8 additions and 8 deletions.
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -14,7 +14,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: [3.8, 3.9, 3.10, 3.11]
+        python-version: ['3.8', '3.9', '3.10', '3.11']
     defaults:
       run:
         shell: bash -l {0}

diff --git a/README.md b/README.md
@@ -36,7 +36,7 @@ Import your data with `neo4jsbml` into Neo4j.
 ```sh
 neo4jsbml \
     # Database parameters
-    --input-protocol-str ["neo4j", "bolt"] \
+    --input-protocol-str ["neo4j", "neo4j+s", "neo4j+ssc", "bolt", "bolt+s", "bolt+ssc"] \
     --input-url-str "localhost" \
     --input-port-int 7687 \
     --input-user-str "neo4j" \

diff --git a/docs/example.rst b/docs/example.rst
@@ -4,7 +4,7 @@ Example
 View shared metabolite
 ----------------------
 
-View shared metabolite, fumarat, between two models: *iAF1260* and *iML1515* available from `BiGG <http://bigg.ucsd.edu>`_
+View shared metabolite, fumarate, between two models: *iAF1260* and *iML1515* available from `BiGG <http://bigg.ucsd.edu>`_
 
 .. code-block:: console
 

diff --git a/docs/usage.rst b/docs/usage.rst
@@ -4,7 +4,7 @@ Usage
 Installation
 ------------
 
-To use neo4jsbml, first install it using conda:
+With conda:
 
 .. code-block:: console
 
@@ -15,7 +15,7 @@ Principles
 
 Import data from SBML into the Neo4j database is conducted in several steps:
 
-1. Define your schema with `Arrows <https://arrows.app>`_ and download the schema at the JSON format
+1. Define your schema with `Arrows <https://arrows.app>`_ and download the schema at the ``JSON`` format
 2. Import your data into Neo4j
 
 
@@ -41,7 +41,7 @@ Configure access to Neo4j
 
 The connection to the Neo4j database needs to have several parameters defined:
 
-* protocol: ``neo4j`` or ``bolt`` (default: ``neo4j``)
+* protocol: ``neo4j``, ``neo4j+s``, ``neo4j+ssc``, ``bolt``, ``bolt+s``, ``bolt+ssc`` (default: ``neo4j``)
 * url (default: ``localhost``)
 * port (default: ``7687``)
 * user name (default: ``neo4j``)
@@ -98,7 +98,7 @@ Command line
 ~~~~~~~~~~~~
 To import your data with ``neo4jsbml`` into Neo4j, you will need:
 1. the database parameters
-2. the ``SBML`` file, the model
+2. the ``SBML`` file, e.g. the model
 3. the ``JSON`` file downloaded from `arrows <https://arrows.app>`_
 
 .. code-block:: console

diff --git a/src/neo4jsbml/connect.py b/src/neo4jsbml/connect.py
@@ -51,7 +51,7 @@ def from_config(cls, path: str) -> "Connect"
         create a Connect from an .ini file
     """
 
-    PROTOCOLS = ["neo4j", "bolt"]
+    PROTOCOLS = ["neo4j", "neo4j+s", "neo4j+ssc", "bolt", "bolt+s", "bolt+ssc"]
 
     def __init__(
         self,