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Score

Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.


Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.

Key Features

  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration

Documentation

Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.

Development Environment

Support & Contributions

  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.

Related Software

The Overture Platform includes the following Overture Components:


SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.

Funding Acknowledgement

Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.

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About

Secure Cloud Object REsource: file transfer microservice

www.overture.bio/products/score

Resources

Readme
AGPL-3.0 license

Code of conduct

Code of conduct

Contributing

Contributing
Activity
Custom properties

Stars

20 stars

Watchers

27 watching

Forks

11 forks
Report repository

Releases

Packages

Used by

Contributors

Languages

, 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Add copy buttons to all 
 blocks\n(function() {\n function addCopyButtons() {\n document.querySelectorAll('pre code').forEach(function(codeBlock) {\n if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;\n codeBlock.parentElement.setAttribute('data-copy-added', 'true');\n \n var btn = document.createElement('button');\n btn.textContent = 'Copy';\n btn.style.cssText = 'position:absolute;top:4px;right:4px;padding:2px 8px;font-size:11px;background:#4ecdc4;border:none;border-radius:4px;color:#1a1a2e;cursor:pointer;opacity:0.7;transition:opacity 0.2s;';\n btn.onmouseover = function() { this.style.opacity = '1'; };\n btn.onmouseout = function() { this.style.opacity = '0.7'; };\n btn.onclick = function() {\n navigator.clipboard.writeText(codeBlock.textContent).then(function() {\n btn.textContent = 'Copied!';\n setTimeout(function() { btn.textContent = 'Copy'; }, 1500);\n });\n };\n codeBlock.parentElement.style.position = 'relative';\n codeBlock.parentElement.appendChild(btn);\n });\n }\n \n addCopyButtons();\n \n // Re-run on dynamic content\n var observer = new MutationObserver(addCopyButtons);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Add Copy Buttons to Code Blocks");
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '

Skip to content
BranchesTags
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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
Packages
Used by
Contributors
Languages

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Force GitHub README to respect dark mode\n(function() {\n var style = document.createElement('style');\n style.textContent = '\n .markdown-body {\n color-scheme: dark light;\n }\n .markdown-body pre { background: #161b22 !important; }\n .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }\n .markdown-body table th, .markdown-body table td { border-color: #30363d !important; }\n .markdown-body img { background: #0d1117; }\n .markdown-body blockquote { border-left-color: #8b949e; }\n .markdown-body hr { border-color: #30363d; }\n ';\n document.head.appendChild(style);\n})();", "GitHub Dark Mode README Fix");
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
Packages
Used by
Contributors
Languages

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Highlight search terms from Google/DuckDuckGo/Bing referrer\n(function() {\n var ref = document.referrer;\n var terms = [];\n \n if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {\n var url = new URL(ref);\n var q = url.searchParams.get('q') || url.searchParams.get('p');\n if (q) {\n terms = q.split(/\\s+/).filter(function(t) { return t.length > 2; });\n }\n }\n \n if (terms.length === 0) return;\n \n var style = document.createElement('style');\n style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';\n document.head.appendChild(style);\n \n function highlight(node) {\n if (node.nodeType === 3) { // text node\n var text = node.textContent;\n var found = false;\n terms.forEach(function(term) {\n var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\') + ')', 'gi');\n if (regex.test(text)) {\n found = true;\n var frag = document.createDocumentFragment();\n var parts = text.split(regex);\n parts.forEach(function(part, i) {\n if (i % 2 === 0) {\n frag.appendChild(document.createTextNode(part));\n } else {\n var span = document.createElement('span');\n span.className = 'userscript-highlight';\n span.textContent = part;\n frag.appendChild(span);\n }\n });\n node.parentNode.replaceChild(frag, node);\n }\n });\n } else if (node.nodeType === 1 && node.childNodes) { // element\n var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];\n if (!skipTags.includes(node.tagName)) {\n Array.from(node.childNodes).forEach(highlight);\n }\n }\n }\n \n highlight(document.body);\n \n // Re-highlight on dynamic content\n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1 || node.nodeType === 3) highlight(node);\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Highlight Search Terms");
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
Packages
Used by
Contributors
Languages

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links");
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '

Skip to content
BranchesTags
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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
Packages
Used by
Contributors
Languages

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default");
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
Packages
Used by
Contributors
Languages

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers");
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
Repository files navigation
Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
Powered by
JetBrains logo.
About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode");
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();

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Score
Score is a file transfer service designed to enable large-file upload and download, providing a robust API for secure file transfer and storage operations. It serves as an intermediary between object storage systems and user authorization mechanisms, using pre-signed URLs for efficient and protected data access.

Score is part of Overture, a collection of open-source software microservices used to create platforms for researchers to organize and share genomics data.
Key Features
  • Multi-cloud Support: Compatible with AWS S3, Azure Storage, and any object storage with an S3 compliant API (Minio, Ceph, etc.)
  • High-performance Transfers: Implements multipart uploads and downloads for optimal throughput
  • Genomic Data Handling (SamTools): Supports BAM/CRAM file slicing by genomic region and provides built-in samtools operations for BAM file handling
  • Data Integrity: Ensures file integrity through MD5 checksum validation on uploads and downloads
  • Security: Implements ACL-based security using OAuth2 with study code-scoped access
  • Metadata Integration: Integrates with the Song metadata management system for comprehensive data tracking
  • File Bundling: Enables efficient transfer of multiple files in a single bundle
  • Resumable Downloads: Supports resuming downloads after network interruptions
  • FUSE Support: Offers file system in Userspace (FUSE) support for enhanced file operations
  • Interactive API Documentation: Built-in Swagger UI for easy API interaction and exploration
Documentation
Technical resources for those working with or contributing to the project are available from our official documentation site, the following content can also be read and updated within the /docs folder of this repository.
Development Environment
Support & Contributions
  • For support, feature requests, and bug reports, please see our Support Guide.
  • For detailed information on how to contribute to this project, please see our Contributing Guide.
Related Software
The Overture Platform includes the following Overture Components:

SoftwareDescription
ScoreTransfer data to and from any cloud-based storage system
SongCatalog and manage metadata associated to file data spread across cloud storage systems
MaestroOrganizing your distributed data into a centralized Elasticsearch index
ArrangerA search API with reusable search UI components
StageA React-based web portal scaffolding
LyricA model-agnostic, tabular data submission system
LecternSchema Manager, designed to validate, store, and manage collections of data dictionaries.
Funding Acknowledgement
Overture is supported by grant #U24CA253529 from the National Cancer Institute at the US National Institutes of Health, and additional funding from Genome Canada, the Canada Foundation for Innovation, the Canadian Institutes of Health Research, Canarie, and the Ontario Institute for Cancer Research.
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About
Secure Cloud Object REsource: file transfer microservice
www.overture.bio/products/score
Resources
Readme
AGPL-3.0 license
Code of conduct
Code of conduct
Contributing
Contributing
Activity
Custom properties
Stars
20 stars
Watchers
27 watching
Forks
11 forks
Report repository
Releases
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Used by
Contributors
Languages