Merge pull request #2 from bio-codes/develop

Refine site copy and update ISCC metadata

Author: titusz

.gitignore

@@ -8,3 +8,4 @@ vendor/
 node_modules/
 *.swp
 *.swo
+CLAUDE.md

Gemfile.lock

@@ -18,6 +18,7 @@ GEM
     ffi (1.17.3-arm-linux-gnu)
     ffi (1.17.3-arm-linux-musl)
     ffi (1.17.3-arm64-darwin)
+    ffi (1.17.3-x64-mingw-ucrt)
     ffi (1.17.3-x86-linux-gnu)
     ffi (1.17.3-x86-linux-musl)
     ffi (1.17.3-x86_64-darwin)
@@ -36,6 +37,9 @@ GEM
     google-protobuf (4.34.0-arm64-darwin)
       bigdecimal
       rake (~> 13.3)
+    google-protobuf (4.34.0-x64-mingw-ucrt)
+      bigdecimal
+      rake (~> 13.3)
     google-protobuf (4.34.0-x86-linux-gnu)
       bigdecimal
       rake (~> 13.3)
@@ -126,6 +130,8 @@ GEM
       google-protobuf (~> 4.31)
     sass-embedded (1.97.3-riscv64-linux-musl)
       google-protobuf (~> 4.31)
+    sass-embedded (1.97.3-x64-mingw-ucrt)
+      google-protobuf (~> 4.31)
     sass-embedded (1.97.3-x86_64-darwin)
       google-protobuf (~> 4.31)
     sass-embedded (1.97.3-x86_64-linux-android)
@@ -153,6 +159,7 @@ PLATFORMS
   riscv64-linux-gnu
   riscv64-linux-musl
   ruby
+  x64-mingw-ucrt
   x86-linux-gnu
   x86-linux-musl
   x86_64-darwin
@@ -181,6 +188,7 @@ CHECKSUMS
   ffi (1.17.3-arm-linux-gnu) sha256=5bd4cea83b68b5ec0037f99c57d5ce2dd5aa438f35decc5ef68a7d085c785668
   ffi (1.17.3-arm-linux-musl) sha256=0d7626bb96265f9af78afa33e267d71cfef9d9a8eb8f5525344f8da6c7d76053
   ffi (1.17.3-arm64-darwin) sha256=0c690555d4cee17a7f07c04d59df39b2fba74ec440b19da1f685c6579bb0717f
+  ffi (1.17.3-x64-mingw-ucrt) sha256=5f1d7d067a9a1058ad183dba25b05557cd51c85fc1768c49338eabc1cf242d7c
   ffi (1.17.3-x86-linux-gnu) sha256=868a88fcaf5186c3a46b7c7c2b2c34550e1e61a405670ab23f5b6c9971529089
   ffi (1.17.3-x86-linux-musl) sha256=f0286aa6ef40605cf586e61406c446de34397b85dbb08cc99fdaddaef8343945
   ffi (1.17.3-x86_64-darwin) sha256=1f211811eb5cfaa25998322cdd92ab104bfbd26d1c4c08471599c511f2c00bb5
@@ -191,6 +199,7 @@ CHECKSUMS
   google-protobuf (4.34.0-aarch64-linux-gnu) sha256=0ab8a8a97976a2265d647e69b3ff1980c89184abdaf06d36091856c5ab37cc55
   google-protobuf (4.34.0-aarch64-linux-musl) sha256=0632a86df6d320eac3b335bd779499d43ad8ee6d1f8c8494b773ed5d3d5c6ab4
   google-protobuf (4.34.0-arm64-darwin) sha256=f83967a8095a9da676b79ba372c58fef2ca3878428bd40febfce65b3752c90d1
+  google-protobuf (4.34.0-x64-mingw-ucrt) sha256=f5a5bedf5ad7b388e29abd45d30a43712016fcbd5c8ac8d7ee76ce3493ae5fb0
   google-protobuf (4.34.0-x86-linux-gnu) sha256=21108e5cee407cb46c38f96fa93ea1ea8e463a45c8031261df3f9131458db4e3
   google-protobuf (4.34.0-x86-linux-musl) sha256=58cb40ce43e2dc559eef112ff8d522aad489ba90f693eb95fdd946eaa6cc81e9
   google-protobuf (4.34.0-x86_64-darwin) sha256=4a5b67281993345adca54bb32947f25a289597eafaa240e5b714d0a740f99321
@@ -229,6 +238,7 @@ CHECKSUMS
   sass-embedded (1.97.3-riscv64-linux-android) sha256=201426b3e58611aa8cf34a7574df51905ec42fefb5a69982cc8497ac7fb26a6b
   sass-embedded (1.97.3-riscv64-linux-gnu) sha256=d7bac32f4de55c589a036da13ac4482bf5b7dfac980b4c0203d31a1bd9f07622
   sass-embedded (1.97.3-riscv64-linux-musl) sha256=621d981d700e2b8d0459b5ea696fff746dfa07d6b6bbc70cd982905214b07888
+  sass-embedded (1.97.3-x64-mingw-ucrt) sha256=72994dcfacc0559789a3624c78c5fa66962379bb8d8c0d6dea85906c5b6e66ee
   sass-embedded (1.97.3-x86_64-darwin) sha256=578f167907ee2a4d355a5a40bcf35d2e3eb90c87008dcd9ce31a2c4a877697f6
   sass-embedded (1.97.3-x86_64-linux-android) sha256=8f5e179bee8610be432499f228ea4e53ab362b1db0da1ae3cd3e76b114712372
   sass-embedded (1.97.3-x86_64-linux-gnu) sha256=173a4d0dbe2fffdf7482bd3e82fb597dfc658c18d1e8fd746aa7d5077ed4e850

_config.yml

@@ -5,7 +5,7 @@ url: "https://bio-codes.github.io"
 baseurl: ""
 
 # Project
-tagline: "Similarity-Preserving Content Codes for Bioimaging Data"
+tagline: "Similarity-Preserving Codes for Bioimaging Data"
 
 # Build settings
 markdown: kramdown

_data/challenge.yml

@@ -18,7 +18,7 @@ cards:
           publications — with no shared identity across them.
       - strong: "No Audit Trail:"
         text: >
-          Challenges to verify data integrity or detect manipulation
+          No reliable way to verify data integrity or detect manipulation
           after the fact.
       - strong: "Lost Provenance:"
         text: >
@@ -39,18 +39,18 @@ cards:
           from available data — independently and without any central authority.
           Use the ISCC Generator at iscc.io/resources.
         url: https://iscc.io/resources/
-      - strong: "Generating, signing, and timestamping ISCCs"
+      - strong: "Sign and timestamp ISCCs"
         text: >
-          creates persistent identifiers to securely reference and link
-          data in repositories with images in papers.
+          to create persistent identifiers that securely link repository
+          data with the figures in published papers.
 
   - id: impact
     icon: ""
     heading: Scientific Impact
     items:
       - strong: "Cryptographic figure data verification"
         text: "via the ISCC audit trail."
-      - strong: "Improved data integrity, transparency, and reusability."
-        text: ""
-      - strong: "Enhanced AI-readiness"
-        text: "of bioimaging datasets for trusted AI applications."
+      - strong: "Better data integrity and reusability"
+        text: "through transparent, verifiable provenance chains."
+      - strong: "AI-ready bioimaging datasets"
+        text: "with verified origins, so AI models can train on data you can trace."

_data/features.yml

@@ -7,15 +7,15 @@
 section_eyebrow: Capabilities
 section_title: Built for scientific data & bioimaging
 section_sub: >
-  Addressing the specific challenges of large-scale imaging data
-  in modern research environments.
+  Designed for the specific problems of large-scale imaging data
+  in research.
 
 features:
   - icon: ""
     title: ISO 24138:2024 Compliant
     description: >
-      Implements the official international standard, ensuring global
-      interoperability across institutions, repositories, and tools.
+      Follows the international standard, so codes generated anywhere
+      are compatible everywhere — across institutions, repositories, and tools.
 
   - icon: ""
     title: High Performance
@@ -32,14 +32,14 @@ features:
   - icon: ""
     title: FAIR Principles
     description: >
-      Supports Findable, Accessible, Interoperable, and Reusable data
-      principles as mandated by EOSC and European funding bodies.
+      Meets the Findable, Accessible, Interoperable, and Reusable data
+      requirements from EOSC and European funding bodies.
 
   - icon: ""
     title: AI-Ready Data
     description: >
-      Persistent content-based identifiers survive format conversions
-      and enable reliable provenance tracking for AI training datasets.
+      Content-based identifiers survive format conversions, so provenance
+      stays intact when datasets move into AI training pipelines.
 
   - icon: ""
     title: Platform Integration

_data/integrations.yml

@@ -19,9 +19,9 @@ platforms:
     plugin_name: omero-iscc
     status: available
     description: >
-      Server plugin for automatic ISCC generation on image import.
-      Enables facility-level deduplication and provenance tracking
-      within OMERO's image management infrastructure.
+      Server plugin that generates ISCCs automatically on image import.
+      Facilities get deduplication and provenance tracking without
+      changing their existing OMERO workflows.
     capabilities:
       - Automatic ISCC generation on import
       - Facility-level deduplication
@@ -62,8 +62,8 @@ platforms:
     plugin_name: ""
     status: planned
     description: >
-      Pipeline integration for high-content screening datasets,
-      enabling ISCC-based deduplication across large plate acquisitions.
+      Pipeline integration for high-content screening datasets.
+      Deduplicates across large plate acquisitions using ISCC codes.
     capabilities:
       - Pipeline-level ISCC generation
       - High-content screening deduplication

_data/iscc.yml

@@ -9,9 +9,8 @@ standard:
   short: ISCC
   iso: ISO 24138
   iso_url: https://www.iso.org/standard/77899.html
-  homepage_url: https://iscc.codes/
-  spec_url: https://iscc.codes/specification/
-  concept_url: https://iscc.codes/concept/
+  homepage_url: https://iscc.io
+  spec_url: https://ieps.iscc.codes
   description: >
     A standardised (ISO 24138) multi-component fingerprint for various
     media types and file formats. Computed from the asset itself — it
@@ -30,9 +29,9 @@ iscc_id:
   registry_url: https://github.com/iscc/iscc-registry
   did_method_url: https://ieps.iscc.codes/iep-0015/
   description: >
-    A persistent identifier derived from ISCC content codes. ISCC-IDs link
-    raw data, processed derivatives, and published figures into a single
-    auditable chain of provenance.
+    A persistent identifier derived from ISCC content codes. ISCC-IDs
+    connect raw data, processed derivatives, and published figures into
+    one auditable provenance chain.
   properties:
     - label: Fingerprinting
       description: Helps find metadata even when filenames or paths have changed.
@@ -42,22 +41,18 @@ iscc_id:
       description: Demonstrates when content was created or registered.
     - label: Secure linking
       description: >
-        Enables provenance verification across repositories, publications,
+        Verifies provenance across repositories, publications,
         and analysis pipelines.
   components:
     - number: 1
       name: ISCC-CODE
       description: Algorithmically generated, reproducible data descriptor.
-      url: https://github.com/iscc/iscc-core
     - number: 2
       name: Actor
       description: Entity owning the ISCC-ID.
-      url: https://github.com/iscc/iscc-registry
     - number: 3
       name: Creation Time
       description: Timestamp of ISCC-ID creation.
-      url:
     - number: 4
       name: Metadata URL
       description: URL for accessing ISCC-ID metadata.
-      url: https://iscc.codes/specification/

_data/site.yml

@@ -6,15 +6,15 @@
 # ─────────────────────────────────────────────────────────────────
 
 title: BIOCODES
-tagline: Similarity-Preserving Content Codes for Bioimaging Data
+tagline: Similarity-Preserving Codes for Bioimaging Data
 
 hero:
   eyebrow: "Funded by EU Horizon Europe · OSCARS Initiative"
-  headline: "Similarity-Preserving Content Codes<br/>for Bioimaging Data"
+  headline: "Similarity-Preserving Codes<br/>for Bioimaging Data"
   subheadline: >
-    BIOCODES implements the ISO 24138 International Standard Content Code
-    for bioimaging data — enabling integrity verification, deduplication,
-    and cross-platform provenance to make your data AI-ready and FAIR-compliant.
+    BIOCODES brings the ISO 24138 International Standard Content Code
+    to bioimaging data. Verify integrity, find duplicates, and trace
+    provenance across platforms — from raw data to publication.
   cta_primary:
     label: Get Started
     url: https://sum.iscc.codes/quickstart/

_data/tools.yml

@@ -83,9 +83,9 @@ tools:
     status: "Alpha"
     status_color: amber
     description: >
-      OMERO server integration plugin. Automatically generates and stores
-      ISCC identifiers for images imported into OMERO, enabling
-      facility-level deduplication and FAIR-compliant provenance tracking.
+      OMERO server plugin. Generates and stores ISCC identifiers
+      automatically on image import, so facilities can deduplicate
+      and track provenance without extra steps.
     install: ""
     platforms:
       - Linux