PyPI - BiNgoViewer - Versions diffs - 2.0.2__tar.gz → 2.0.3__tar.gz - Mend

BiNgoViewer 2.0.2tar.gz → 2.0.3tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (31) hide show

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/BiNgoViewer.egg-info/PKG-INFO RENAMED Viewed

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: BiNgoViewer
-Version: 2.0.2
+Version: 2.0.3
 Summary: BiNgo Genome Viewer — a lightweight browser-based genomics viewer
 Author-email: Billy M Ngo <billy.ngo0108@gmail.com>
 License: Proprietary

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/BiNgoViewer.egg-info/SOURCES.txt RENAMED Viewed

@@ -12,7 +12,7 @@ bingoviewer/cli.py
 bingoviewer/icon.py
 bingoviewer/install_shortcut.py
 bingoviewer/frontend_dist/index.html
-bingoviewer/frontend_dist/assets/index-Dhy-wuVh.js
+bingoviewer/frontend_dist/assets/index-CzAKulXL.js
 bingoviewer/server/__init__.py
 bingoviewer/server/main.py
 bingoviewer/server/state.py

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/PKG-INFO RENAMED Viewed

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: BiNgoViewer
-Version: 2.0.2
+Version: 2.0.3
 Summary: BiNgo Genome Viewer — a lightweight browser-based genomics viewer
 Author-email: Billy M Ngo <billy.ngo0108@gmail.com>
 License: Proprietary

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/bingoviewer/__init__.py RENAMED Viewed

@@ -1,3 +1,3 @@
 """BiNgo Genome Viewer — a lightweight browser-based genomics viewer."""
-__version__ = "2.0.2"
+__version__ = "2.0.3"

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/bingoviewer/cli.py RENAMED Viewed

@@ -132,25 +132,20 @@ def _record_update_check():
 def _do_upgrade():
     """Run pip install --upgrade bingoviewer. Returns True on success."""
-    # Try normal install first
-    try:
-        result = subprocess.run(
-            [sys.executable, "-m", "pip", "install", "--upgrade", "bingoviewer", "-q"],
-            capture_output=True, text=True, timeout=120,
-        )
-        if result.returncode == 0:
-            return True
-    except Exception:
-        pass
-    # Fallback: try with --user flag (permission issues on some systems)
-    try:
-        result = subprocess.run(
-            [sys.executable, "-m", "pip", "install", "--upgrade", "--user", "bingoviewer", "-q"],
-            capture_output=True, text=True, timeout=120,
-        )
-        return result.returncode == 0
-    except Exception:
-        return False
+    cmds = [
+        [sys.executable, "-m", "pip", "install", "--upgrade", "bingoviewer"],
+        [sys.executable, "-m", "pip", "install", "--upgrade", "--user", "bingoviewer"],
+    ]
+    for cmd in cmds:
+        try:
+            result = subprocess.run(cmd, capture_output=True, text=True, timeout=120)
+            if result.returncode == 0:
+                return True
+            # Log the error for debugging
+            _log(f"  pip failed: {result.stderr.strip()[:200]}")
+        except Exception as e:
+            _log(f"  pip exception: {e}")
+    return False
 def _log(msg):
@@ -426,7 +421,9 @@ def main():
             print(f"  BiNgo Genome Viewer updated to {ver}.")
             print(f"  Run 'bingo' to launch the new version.")
         elif status == 'failed':
-            print(f"  Update to {ver} failed. Try running as administrator or:")
+            print(f"  Update to {ver} failed.")
+            print(f"  Check ~/.bingoviewer/update.log for details.")
+            print(f"  Or update manually:")
             print(f"    pip install --upgrade bingoviewer")
         elif status == 'skip':
             print(f"  Could not reach PyPI. Check your internet connection.")

bingoviewer-2.0.2/bingoviewer/frontend_dist/assets/index-Dhy-wuVh.js → bingoviewer-2.0.3/bingoviewer/frontend_dist/assets/index-CzAKulXL.js RENAMED Viewed

@@ -94,4 +94,4 @@ ${z.join(`
 `)}
 Tip: If files were moved, re-add them using the 📂 Path button.`):(x("Session restored"),setTimeout(()=>{x(null),e()},1200))}catch(O){h(O.message)}finally{m(!1)}}const B=yc(),D=oy(c);return a.jsx("div",{style:D.overlay,onClick:W=>{W.target===W.currentTarget&&e()},children:a.jsxs("div",{style:D.panel,children:[a.jsxs("div",{style:D.header,children:[a.jsx("span",{style:D.title,children:"Session"}),a.jsx("button",{style:D.closeBtn,onClick:e,children:"✕"})]}),a.jsxs("div",{style:D.body,children:[a.jsxs("div",{style:D.section,children:[a.jsx("div",{style:D.sectionTitle,children:"Save"}),a.jsx("div",{style:{display:"flex",gap:8,flexWrap:"wrap"},children:a.jsx("button",{style:D.btn,onClick:k,disabled:!r||p,children:"Save to file"})}),a.jsx("div",{style:{fontSize:10,color:c.textTertiary,marginTop:4},children:"Session is also auto-saved to browser storage."})]}),a.jsxs("div",{style:D.section,children:[a.jsx("div",{style:D.sectionTitle,children:"Restore"}),a.jsxs("div",{style:{display:"flex",gap:8,flexWrap:"wrap"},children:[a.jsx("button",{style:D.btn,onClick:T,disabled:p,children:"Load from file"}),B&&a.jsx("button",{style:D.btn,onClick:R,disabled:p,children:"Restore last session"})]}),a.jsx("input",{ref:w,type:"file",accept:".json",style:{display:"none"},onChange:b}),B&&a.jsxs("div",{style:{fontSize:10,color:c.textTertiary,marginTop:4},children:["Last auto-save: ",new Date(B.savedAt).toLocaleString(),B.genome&&` — ${B.genome.name}`,B.tracks&&` — ${B.tracks.length} tracks`]})]}),v&&a.jsx("div",{style:{padding:"4px 16px",fontSize:11,color:"#81c784"},children:v}),f&&a.jsx("div",{style:{padding:"4px 16px",fontSize:11,color:"#ef9a9a",whiteSpace:"pre-wrap"},children:f})]}),a.jsx("div",{style:D.footer,children:a.jsx("button",{style:D.btn,onClick:e,children:"Close"})})]})})}function oy(e){return{overlay:{position:"fixed",inset:0,background:e.overlayBg,display:"flex",alignItems:"center",justifyContent:"center",zIndex:1e3},panel:{background:e.panelBg,border:`1px solid ${e.borderAccent}`,borderRadius:8,padding:0,minWidth:380,maxWidth:480,maxHeight:"80vh",display:"flex",flexDirection:"column",boxShadow:"0 8px 32px rgba(0,0,0,0.5)"},header:{display:"flex",justifyContent:"space-between",alignItems:"center",padding:"10px 16px",borderBottom:`1px solid ${e.border}`},title:{fontSize:14,fontWeight:700,color:e.textPrimary},closeBtn:{background:"none",border:"none",color:e.textSecondary,cursor:"pointer",fontSize:18,lineHeight:1,padding:"0 4px"},body:{padding:"8px 0",overflowY:"auto",flex:1},section:{padding:"8px 16px"},sectionTitle:{fontSize:11,color:e.textSecondary,textTransform:"uppercase",letterSpacing:1,marginBottom:6},btn:{background:e.btnBg,border:"none",borderRadius:4,color:e.btnText,padding:"5px 14px",cursor:"pointer",fontSize:12,fontWeight:600},footer:{display:"flex",justifyContent:"flex-end",padding:"10px 16px",borderTop:`1px solid ${e.border}`}}}const vn=[{target:"file-loader",title:"Load Files",description:"Select genome and track files using the file picker, drag and drop, or paste a local file path. Supported formats: FASTA, GenBank, BAM (+BAI), BigWig, WIG, BedGraph, VCF, BED, GTF, GFF.",position:"bottom"},{target:"nav-bar",title:"Navigation & Scrubber",description:"Switch chromosomes, type coordinates (chr1:1000-5000) to jump, zoom with －/＋, and pan with ◀/▶. The blue scrubber bar shows your position — click or drag it to scroll across the entire chromosome.",position:"bottom"},{target:"track-area",title:"Track Interaction",description:"Left-click drag to pan, scroll to zoom. Right-click drag to select a region — hover the blue highlight for stats. Double-click a gene to zoom in with context. Hover features for detailed tooltips.",position:"inside"},{target:"skeleton-track-label",title:"Track Controls",description:"Drag ≡ to reorder tracks, click the color swatch to change colors, and click × to remove. Drag the bottom edge of a track to resize its height.",position:"right"},{target:"btn-settings",title:"Track Settings",description:"Select tracks and adjust: height, color, Y-axis scale (auto/manual/log), bar width, peak outline trace with color picker, show/hide bars, pointed arrows, and nucleotide display for BAM reads (shows A/C/G/T with mismatch highlighting when zoomed in).",position:"bottom",action:"open-settings"},{target:"header-btns",title:"Themes",description:"Choose from built-in themes (Dark, Light, Colorblind, Soft, High Contrast) or create a fully custom theme. Theme preferences persist across sessions.",position:"bottom",action:"open-theme"},{target:"btn-export",title:"Export Image",description:"Export your current view as SVG or PNG. 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{bingoviewer-2.0.2 → bingoviewer-2.0.3}/bingoviewer/frontend_dist/index.html RENAMED Viewed

@@ -10,7 +10,7 @@
       body { font-family: Arial, Helvetica, sans-serif; background: #1a1a1a; color: #e0e0e0; height: 100vh; overflow: hidden; }
       #root { height: 100vh; display: flex; flex-direction: column; }
     </style>
-    <script type="module" crossorigin src="/assets/index-Dhy-wuVh.js"></script>
+    <script type="module" crossorigin src="/assets/index-CzAKulXL.js"></script>
   </head>
   <body>
     <div id="root"></div>

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/bingoviewer/server/main.py RENAMED Viewed

@@ -24,7 +24,7 @@ from api.genome import router as genome_router
 from api.tracks import router as tracks_router
 from api.data import router as data_router
-app = FastAPI(title="BiNgo Genome Viewer API", version="2.0.2")
+app = FastAPI(title="BiNgo Genome Viewer API", version="2.0.3")
 app.add_middleware(
     CORSMiddleware,

{bingoviewer-2.0.2 → bingoviewer-2.0.3}/pyproject.toml RENAMED Viewed

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 [project]
 name = "BiNgoViewer"
-version = "2.0.2"
+version = "2.0.3"
 description = "BiNgo Genome Viewer — a lightweight browser-based genomics viewer"
 readme = "README.md"
 license = {text = "Proprietary"}