Remove json resources in package

.github/workflows/format.yml

@@ -0,0 +1,8 @@
+name: Ruff
+on: [ push, pull_request ]
+jobs:
+  ruff:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - uses: chartboost/ruff-action@v1

.github/workflows/main.yml

@@ -7,9 +7,9 @@ jobs:
   build-and-publish:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.x'
       - name: Install dependencies

.github/workflows/push.yml

@@ -4,9 +4,9 @@ jobs:
   lint:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.x'
       - name: Install dependencies
@@ -21,9 +21,9 @@ jobs:
   test:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v2
+        uses: actions/setup-python@v5
         with:
           python-version: '3.x'
       - name: Install dependencies

.github/workflows/release.yml

@@ -11,9 +11,9 @@ jobs:
   build-and-publish:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.x'
       - name: Install dependencies

browser.py

@@ -22,14 +22,16 @@
 ix = "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/trix/hg38.ix"
 ixx = "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/trix/hg38.ixx"
 meta = "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/trix/meta.json"
-jbrowse_conf.set_assembly(assembly_data,
-                          aliases=aliases,
-                          refname_aliases=ref_name_aliases)
+jbrowse_conf.set_assembly(
+    assembly_data, aliases=aliases, refname_aliases=ref_name_aliases
+)
 
 # add a track
-track_data = "https://s3.amazonaws.com/jbrowse.org/genomes/" \
-              "GRCh38/ncbi_refseq/GCA_000001405.15_GRCh38_full" \
-              "_analysis_set.refseq_annotation.sorted.gff.gz"
+track_data = (
+    "https://s3.amazonaws.com/jbrowse.org/genomes/"
+    "GRCh38/ncbi_refseq/GCA_000001405.15_GRCh38_full"
+    "_analysis_set.refseq_annotation.sorted.gff.gz"
+)
 jbrowse_conf.add_track(track_data, name="test-demo", track_id="test-track")
 # deleting a track
 jbrowse_conf.add_track(track_data, name="delete", track_id="test-delete-track")
@@ -50,10 +52,7 @@
 component = create_component(config)
 
 # launch the component
-app.layout = html.Div(
-    [component],
-    id='test'
-)
+app.layout = html.Div([component], id="test")
 
 if __name__ == "__main__":
     app.run_server(port=3001, debug=True)

jbrowse_jupyter/dev_server.py

@@ -91,7 +91,8 @@ def send_head(self):
             last = file_len - 1
         response_length = last - first + 1
 
-        self.send_header("Content-Range", "bytes %s-%s/%s" % (first, last, file_len))
+        self.send_header("Content-Range", "bytes %s-%s/%s" %
+                         (first, last, file_len))
         self.send_header("Content-Length", str(response_length))
         self.send_header("Last-Modified", self.date_time_string(fs.st_mtime))
         self.end_headers()