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skohub-io / skohub-vocabs

A lightweight tool to publish SKOS Vocabularies
https://skohub.io/
Apache License 2.0
32 stars 25 forks source link

Vocabulary output as json fails #278

Closed nanoyan closed 8 months ago

nanoyan commented 8 months ago

Since ? two weeks, the JSON output does not work anymore. Any sub entry works, but an request to the the root of the vocab responds with an empty JSON file. This seems to happen when we change anything in our repo and the hook triggers a reload of ttl and a production of the JSON.

We did not change any ttl file, just did some adjustments of the csv files our ttl files base on. So the hook works, the ttl is drawn, but the processing seems buggy.

This blocks all of our web aplications. No one can work with our vocabs anymore.

sroertgen commented 8 months ago

Can you please provide a turtle file for this vocab? Will look at it asap

sroertgen commented 8 months ago

If you have access, please also attach the output of the webhook

nanoyan commented 8 months ago

vocab group

The webhook takes all of three vocabs/ttl files of this repo. We've trouble with all vocabs.

Everything else works fine. Just the JSON output of the root fails.

nanoyan commented 8 months ago

Additional hint: The old working repos do not have the fancy icon to copy the URL of the vocab. The settings icon of the search slot seems new too.

nanoyan commented 8 months ago

Hi again, you are right we have an error. But I don't know why, becuase we didn't change anything on the ttls.

SkoHub SkoHub-Log error Mon Nov 06 2023 Payload

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Headers

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Deploy log

16:04:08

> skohub-vocabs@0.1.0 container-build
> gatsby build --prefix-paths

16:04:08
╔════════════════════════════════════════════════════════════════════════╗
║                                                                        ║
║   Gatsby collects anonymous usage analytics                            ║
║   to help improve Gatsby for all users.                                ║
║                                                                        ║
║   If you'd like to opt-out, you can use `gatsby telemetry --disable`   ║
║   To learn more, checkout https://gatsby.dev/telemetry                 ║
║                                                                        ║
╚════════════════════════════════════════════════════════════════════════╝
16:04:11
success compile gatsby files - 0.905s

16:04:11
success load gatsby config - 0.058s
16:04:11

16:04:12
success load plugins - 0.549s

16:04:12
success onPreInit - 0.077s

16:04:12
success delete html and css files from previous builds - 0.028s

16:04:12
success initialize cache - 0.264s

16:04:13
success copy gatsby files - 0.112s

16:04:13
success Compiling Gatsby Functions - 0.226s

16:04:13
info Found these turtle files:

16:04:13
info /app/data/iqb-vocabs/v10/a1_Anforderungsbereiche.ttl

16:04:13
info /app/data/iqb-vocabs/v10/i1_Inhaltsbezogene_Kompetenzen.ttl

16:04:13
info /app/data/iqb-vocabs/v10/p1_Prozessbezogene_Kompetenzen.ttl

16:04:13
info Validating:  /app/data/iqb-vocabs/v10/a1_Anforderungsbereiche.ttl

16:04:13

16:04:13
info Validation result:  false
16:04:13

16:04:13

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/a1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/a1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13

16:04:13

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/a1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/a1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13

16:04:13

16:04:13
info Validating:  /app/data/iqb-vocabs/v10/i1_Inhaltsbezogene_Kompetenzen.ttl

16:04:13

16:04:13
info Validation result:  false

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/i1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/i1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning
16:04:13

16:04:13

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/i1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/i1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
info Validating:  /app/data/iqb-vocabs/v10/p1_Prozessbezogene_Kompetenzen.ttl

16:04:13
info Validation result:  false

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/p1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A provided license increases reusability of a vocabulary. Should be
an URI.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/dc/terms/license
 Node, where the error occured:  https://w3id.org/iqb/v10/p1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/p1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
info -----------Warning--------------
 Message:  [
  Literal {
    value: 'A preferred Namespace URI should be given as a string, especially if
 you want to use your vocabulary in reconciliation services.',
    language: '',
    datatype: NamedNode { value: 'http://www.w3.org/2001/XMLSchema#string' }
  }
]
 Path:  http://purl.org/vocab/vann/preferredNamespaceUri
 Node, where the error occured:  https://w3id.org/iqb/v10/p1/#
 Severity of error:  http://www.w3.org/ns/shacl#Warning

16:04:13
success onPreBootstrap - 0.887s

16:04:14
success createSchemaCustomization - 0.004s

16:04:14

16:04:14
warn Calling `createTypes` in the `sourceNodes` API is deprecated. Please use:
`createSchemaCustomization`.

16:04:14

16:04:14
success Clean up stale nodes - 0.004s - 0/0 0.00/s

16:04:14

16:04:14
success Checking for changed pages - 0.000s

16:04:14

16:04:14
success source and transform nodes - 0.118s

16:04:14

16:04:14
info Writing GraphQL type definitions to /app/.cache/schema.gql

16:04:14

16:04:14
success building schema - 0.375s
16:04:14

16:04:14

16:04:14
success createPages - 0.428s
16:04:14

16:04:15

16:04:15
success createPagesStatefully - 0.101s

16:04:15

16:04:15
info Total nodes: 235, SitePage nodes: 98 (use --verbose for breakdown)

16:04:15

16:04:15
success Checking for changed pages - 0.000s

16:04:15

16:04:15
success onPreExtractQueries - 0.000s

16:04:16

16:04:16
success extract queries from components - 1.566s

16:04:16

16:04:16
success write out redirect data - 0.001s
16:04:16

16:04:16

16:04:16
success Build manifest and related icons - 0.117s
16:04:16

16:04:16

16:04:16
success onPostBootstrap - 0.123s
16:04:16

16:04:16

16:04:16
info bootstrap finished - 8.431s
16:04:16

16:04:16

16:04:16
success write out requires - 0.004s
16:04:16

16:04:17
warn `isModuleDeclaration` has been deprecated, please migrate to
`isImportOrExportDeclaration`
    at isModuleDeclaration
(/app/node_modules/@babel/types/lib/validators/generated/index.js:2748:35)
    at PluginPass.Program
(/app/node_modules/babel-plugin-lodash/lib/index.js:102:44)

16:04:25
success Building production JavaScript and CSS bundles - 8.608s

16:04:35

16:04:35
success Building HTML renderer - 9.839s
16:04:35

16:04:35

16:04:35
success Execute page configs - 0.089s

16:04:35
success Caching Webpack compilations - 0.001s

16:04:35
success run queries in workers - 0.093s - 103/103 1109.52/s

16:04:35
success Merge worker state - 0.001s

16:04:35
success Rewriting compilation hashes - 0.001s

16:04:35
success Writing page-data.json and slice-data.json files to public directory -
0.033s - 98/98 3008.96/s

16:04:38
success Building static HTML for pages - 2.374s - 98/98 41.27/s

16:04:38
info There are no new or changed slice html files to build.
16:04:38

16:04:38
success stitching slices - 0.033s

16:04:38

16:04:38
success onPostBuild - 0.000s
16:04:38

16:04:38


Pages

┌ src/components/Concept.jsx
│ ├   /w3id.org/iqb/v10/a1/f3q.de.html
│ └   ...91 more pages available
├ src/components/ConceptScheme.jsx
│ ├   /w3id.org/iqb/v10/a1/index.de.html
│ └   ...2 more pages available
├ src/components/index.jsx
│ └   /index.de.html
└ src/pages/404.js
  ├   /404/
  └   /404.html

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16:04:38
info Done building in 30.665028262 sec

Pages

┌ src/components/Concept.jsx
│ ├   /w3id.org/iqb/v10/a1/f3q.de.html
│ └   ...91 more pages available
├ src/components/ConceptScheme.jsx
│ ├   /w3id.org/iqb/v10/a1/index.de.html
│ └   ...2 more pages available
├ src/components/index.jsx
│ └   /index.de.html
└ src/pages/404.js
  ├   /404/
  └   /404.html

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16:04:39

16:04:39

Hello! Will you help Gatsby improve by taking a four question survey?
It takes less than five minutes and your ideas and feedback will be very
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Pages

┌ src/components/Concept.jsx
│ ├   /w3id.org/iqb/v10/a1/f3q.de.html
│ └   ...91 more pages available
├ src/components/ConceptScheme.jsx
│ ├   /w3id.org/iqb/v10/a1/index.de.html
│ └   ...2 more pages available
├ src/components/index.jsx
│ └   /index.de.html
└ src/pages/404.js
  ├   /404/
  └   /404.html

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  │ D (DSG) Deferred static generation - page generated at runtime │
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  │ λ (Function) Gatsby function                                   │
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  ╰────────────────────────────────────────────────────────────────╯

16:04:39

16:04:39

Give us your feedback here: https://gatsby.dev/feedback

Pages

┌ src/components/Concept.jsx
│ ├   /w3id.org/iqb/v10/a1/f3q.de.html
│ └   ...91 more pages available
├ src/components/ConceptScheme.jsx
│ ├   /w3id.org/iqb/v10/a1/index.de.html
│ └   ...2 more pages available
├ src/components/index.jsx
│ └   /index.de.html
└ src/pages/404.js
  ├   /404/
  └   /404.html

  ╭────────────────────────────────────────────────────────────────╮
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  │   (SSG) Generated at build time                                │
  │ D (DSG) Deferred static generation - page generated at runtime │
  │ ∞ (SSR) Server-side renders at runtime (uses getServerData)    │
  │ λ (Function) Gatsby function                                   │
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sroertgen commented 8 months ago

Thanks, these are just warnings, so it should work fine. I will have a look at it

nanoyan commented 8 months ago

Thank you

sroertgen commented 8 months ago

The jsonld output seems fine: https://skohub.io/iqb-vocabs/v10/heads/master/w3id.org/iqb/v10/i1/index.jsonld (basically it is the same data)

sroertgen commented 8 months ago

Will look at it tomorrow

nanoyan commented 8 months ago

Thank you. We have the same issue with https://skohub.io/iqb-vocabs/v12/heads/master/w3id.org/iqb/v12/a1/index.json https://skohub.io/iqb-vocabs/v34/heads/master/w3id.org/iqb/v34/se/index.json

sroertgen commented 8 months ago 
@prefix n0: <https://w3id.org/iqb/v10/i1/#>. 
@prefix n1: <https://w3id.org/iqb/v10/i1/>.

it has something to do with this. If you delete the hashtag and use:

@prefix n0: <https://w3id.org/iqb/v10/i1/>. 
@prefix n1: <https://w3id.org/iqb/v10/i1/>.

I think it works as expected. (EDIT: The index.json gets build, but the webhook ist still not successfull, but I have an idea why, will try out and come back) I still have to figure out why and especially why it worked before, but the index.json gets built like expected when removing the hashtag.

Having a slash and a hastag is also quite uncommon tbh though not forbidden I think.

If you don't have a specific reason to use /# I recommend to remove it, since I came across other software before which was confused by this.

sroertgen commented 8 months ago

Working now on test as expected: https://test.skohub.io/sroertgen/test-vocabs/heads/main/w3id.org/iqb/v10/i1/index.de.html

Will deploy to prod

sroertgen commented 8 months ago

Now working on prod as well: https://skohub.io/sroertgen/test-vocabs/heads/main/w3id.org/iqb/v10/i1/index.json

sroertgen commented 8 months ago

@nanoyan: The issue was the following: In the past weeks we implemented a check of the files against a shape, to make the error outputs of SkoHub Vocabs more useful. The webhook service, which you use, checks the stdout for messages containing the string error. Your files contain some warnings, but in the string of that warning the word error occurs. This leads to a failing action.

I improved that stdout parsing and your files should now build again.

Regarding the prefixes I mentioned:

@prefix n0: <https://w3id.org/iqb/v10/i1/>. 
@prefix n1: <https://w3id.org/iqb/v10/i1/>.

You are basically creating two different prefixes for the same URI. This is totally ok, but does not make too much sense. You can just use one. Still you have to remove the # at the end to make your vocabs work. I hope that is not too much trouble on your side.

Please check if it works now for you

nanoyan commented 8 months ago

Thank you. Removing # at the end works.