Update app.py

app.py

@@ -46,8 +46,6 @@ def process(bam_file,progress=gr.Progress()):
     else:
         progress(0.2, desc="Downloading BAM file "+bam_file)
         gdown.download(url=bam_file,fuzzy=True, output='ATAC/'+fid + '.bam')
-        # tmp_bamid=bam_file.split('file/d/')[1].split('/view?')[0]
-        # gdown.download(id=tmp_bamid,output=fid + '.bam')
     progress(0.4, desc="Index BAM file")
     time.sleep(0.1)
     pysam.index('ATAC/'+fid + '.bam')
@@ -65,25 +63,8 @@ def process(bam_file,progress=gr.Progress()):
     return 'ATAC/atac_' + fid + '.pickle'
 
 
-css='li {font-size: 15px;}'
-
-with gr.Blocks(theme=gr.themes.Monochrome(),css=css) as app:
-    gr.Markdown('<h1 style="text-align: center; font-size: 2.2em"> '
-                'A computational tool to use ATAC-seq to impute epigenome, transcriptome, and high-resolution chromatin contact maps</h1>')
-
-    gr.HTML('<div style="text-align: center;">'
-            '<a href="https://github.com/zzh24zzh/EPCOT_gradio" style="margin-right: 20px;font-size: 18px; color:black;">[Code]</a>'
-            '<a href="https://www.biorxiv.org/content/10.1101/2022.05.23.493129v2" style="font-size: 18px; color:black;">[Paper]</a>'
-            '</div>')
-    # gr.Markdown('[[Code]](https://github.com/zzh24zzh/EPCOT_gradio) [[Paper]](https://www.biorxiv.org/content/10.1101/2022.05.23.493129v2)')
-    gr.Markdown('## Instructions:\n'
-                '- Use the first app to process ATAC-seq data by uploading an ATAC-seq BAM file.\n'
-                '- Execute the model by uploading the processed ATAC-seq file to the "Run Model" interface in the second app.\n'
-                '- Visualize the prediction results by uploading the predicted files from the "Run Model" interface to the "Visualize Prediction Results" interface.\n')
-    gr.Markdown('<hr>')
-    gr.Markdown('<h1 font-size: 2em"> App 1: Process ATAC-seq data</h1>\n'
-                # '<p style="font-size: 15px;">Hosted on a server from Liu Lab</p>\n'
-                '<p style="font-size: 15px;"><strong>Notice:</strong> Downsample the BAM file before upload if the size is too large</p>')
+css="li {font-size: 16px; --font: 'Quicksand', 'ui-sans-serif', 'system-ui', sans-serif"
+with gr.Blocks(css=css) as app:
     with gr.Row():
         with gr.Column():
             inp=gr.Textbox(
@@ -96,12 +77,6 @@ with gr.Blocks(theme=gr.themes.Monochrome(),css=css) as app:
             out = gr.File(label='Download the processed file')
         btn2.click(fn=process, inputs=inp, outputs=out)
 
-    gr.Markdown('<hr>')
-    gr.Markdown('<h1 font-size: 2em;"> App 2: Run models and visualize prediction results</h1>\n'
-                '<p style="font-size: 16px;">'
-            'Hosted on <a href="https://huggingface.co/spaces/drjieliu/EPCOT" style="font-size: 16px;">Hugging Face Space</a> </p>')
-    with gr.Column():
-        gr.HTML('<iframe src="https://drjieliu-epcot.hf.space" '
-                'border="none" width="100%" height=1200></iframe>')
 
-app.launch(debug=True,enable_queue=True)
+
+app.queue(concurrency_count=1,max_size=10).launch()