@zakodium/nmrium-core 0.6.1 → 0.6.2
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.
- package/dist/nmrium-core.d.ts +33 -1
- package/dist/nmrium-core.js +3 -3
- package/package.json +3 -2
package/dist/nmrium-core.d.ts
CHANGED
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@@ -22,7 +22,7 @@ import type { Zones } from '@zakodium/nmr-types';
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export declare interface ACSExportOptions {
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/**
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-
*
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* Filters ranges for generation
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* If signalKind is "all", include all ranges.
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* If signalKind is "signal", only keep ranges that contain at least one signal with kind signal.
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*/
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@@ -61,6 +61,10 @@ export declare interface ACSExportOptions {
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* Controls the number of decimals for J values in Hz.
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*/
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couplingFormat: string;
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64
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/**
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* Appearance of the publication string
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66
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*/
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67
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textStyle: TextStyle;
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}
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export declare type ACSExportSettings = Record<string, ACSExportOptions>;
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@@ -1333,6 +1337,34 @@ export declare const SUPPORTED_UI_TO_DEPRECATED_UI_SLOTS: Partial<Record<Support
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export declare type SupportedUISlot = (typeof SUPPORTED_UI_SLOTS)[number];
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/**
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* SVG text styles that can be controlled by the user.
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* It is a copy of `react-science/ui#SVGStyledTextUserConfig`
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*/
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export declare interface TextStyle {
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/**
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* Font color.
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* @default inherit
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*/
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fill?: string;
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/**
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* Font size.
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* Range: [0, ∞)
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* @default inherit
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*/
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fontSize?: number;
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/**
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* Font weight.
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* @default 'normal'
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*/
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fontWeight?: 'normal' | 'bold';
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/**
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* Font style.
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* @default 'normal'
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*/
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fontStyle?: 'normal' | 'italic';
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}
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export declare type Unit = UnitElement['unit'];
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declare type UnitElement = (typeof units)[number];
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package/dist/nmrium-core.js
CHANGED
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@@ -1,6 +1,6 @@
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1
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-
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t=[],o={name:"nucleus",ppm:"ppmFormat",hz:"hzFormat"};for(let r in e)t.push(N(e[r],o));return t}function q(e){if(e?.version===7)return e;let t={...e,version:7};return t?.settings&&(t.settings=A(t.settings,"nmrium")),t}function w(e,t="localStorage"){if(e?.version===8)return e;if(t==="nmrium")return ce(e);let o={...e,version:8};for(let r in e.workspaces)o.workspaces[r]=ce(o.workspaces[r]);return o}function ce(e){let{version:t,...o}=e,r={...o};return r.display.panels=Qe(e),r}function Qe(e){let t={},o=e.display.panels;for(let r of Object.keys(o)){let{display:i,open:n}=o[r];t[r]={display:i,visible:i,open:n}}return t}function H(e){if(e?.version===8)return e;let t={...e,version:8};t?.settings&&(t.settings=w(t.settings,"nmrium"));for(let o of t?.data?.spectra||[]){let{filters:r=[]}=o;for(let s=0;s<r.length;s++){let{flag:l,isDeleteAllow:a,label:p,...m}=r[s];r[s]={...m,enabled:l}}let i=r.findIndex(s=>s.name==="apodization");if(i!==-1){let 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t}function te(e){let{version:t}=e;if(t>=11)return e;let o={...e,version:11};return e?.view?.molecules&&(o.view=et(e.view)),o}function et(e){let{molecules:t,...o}=e,r={};for(let[i,n]of Object.entries(t)){let{showAtomNumber:c,...s}=n;r[i]={...s,atomAnnotation:"none",showLabel:!1}}return{molecules:r,...o}}function re(e){if(e?.version>=12)return e;let t={...e,version:12};if(t.data){let o=e.data.spectra??[],r=e.data.molecules??[];for(let i of o){let{sourceId:n,fileCollectionId:c,sourceSelector:s}=i;delete i.sourceId,delete i.fileCollectionId,delete i.sourceSelector,s&&(i.selector={...s,root:c??n})}for(let i of r){let{sourceId:n,fileCollectionId:c,sourceSelector:s}=i;delete i.sourceId,delete i.fileCollectionId,delete i.sourceSelector,s&&(i.selector={...s,root:c??n})}}return t}function oe(e){if(e?.version>=13)return e;let t={...e,version:13};if(t.data){let o=e.data.spectra??[];for(let r of o){let i=r.ranges?.values??[];for(let n of i){let{diaIDs:c,assignment:s,nbAtoms:l,signals:a=[]}=n,p=a.some(m=>m.diaIDs&&m.diaIDs.length>0);for(let m of a)!p&&c&&l&&(m.diaIDs=c,m.nbAtoms=l),!m.assignment&&s&&(m.assignment=s);delete n.diaIDs,delete n.assignment,delete n.nbAtoms}}}return t}function O(e,t){e.plugins||(e.plugins={});let o=e.plugins;for(let r of t.values()){if(!r.shouldSerialize){delete o[r.id];continue}o[r.id]||(o[r.id]={id:r.id,version:r.version}),o[r.id].id=r.id,o[r.id].version=r.version}}var tt=[X,Y,Z,$,G,J,q,H,Q,ee,te,re,oe];function pe(e,t,o){let r=structuredClone(e),i=Object.entries(e?.plugins??{});for(let[s,{version:l}]of i){let a=o.get(s);if(!(a&&a.version>=l)){if(a){console.warn(`Plugin "${a.id}" is loaded with a version older (${a.version}) than the one used to save the state (${l}).
|
|
2
2
|
NMRium may fail to load the state.
|
|
3
3
|
Please update the plugin to the latest version.`);continue}console.warn(`Plugin "${s}@${l}" is not registered. NMRium may fail to load the state.
|
|
4
|
-
Please consider open this file with the plugin installed.`)}}let n=new Set,c=()=>{let s=r.version;for(let l of o.values())for(let a of l.migrations){if(n.has(a)||s<a.minCore||a.maxCore&&s>a.maxCore)continue;if((r.plugins?.[l.id]?.version||0)===l.version)break;r=a.up(r),n.add(a)}};for(let s=e?.version||0;s<t;s++){let l=tt[s];r=l(r),c()}return c(),O(r,o),r}var rt=["topbar.right","topbar.about_us.modal"],ot=[],Qr=[...rt,...ot],it={},ie={};{let e=it,t=ie;for(let[o,r]of Object.entries(e))t[r]||(t[r]=[]),t[r]?.push(o)}function*me(e){let{slot:t,plugins:o,supportedToDeprecatedSlots:r=ie}=e,i=r[t];for(let[n,c]of o.entries()){let s=c.ui;if(!s)continue;let l=s[t];if(l){yield[n,l];continue}if(i)for(let a of i){let p=c.ui?.[a];if(p){yield[n,p],console.warn(`Plugin ${c.id} used deprecated slot "${a}". 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|
|
4
|
+
Please consider open this file with the plugin installed.`)}}let n=new Set,c=()=>{let s=r.version;for(let l of o.values())for(let a of l.migrations){if(n.has(a)||s<a.minCore||a.maxCore&&s>a.maxCore)continue;if((r.plugins?.[l.id]?.version||0)===l.version)break;r=a.up(r),n.add(a)}};for(let s=e?.version||0;s<t;s++){let l=tt[s];r=l(r),c()}return c(),O(r,o),r}var rt=["topbar.right","topbar.about_us.modal"],ot=[],Qr=[...rt,...ot],it={},ie={};{let e=it,t=ie;for(let[o,r]of Object.entries(e))t[r]||(t[r]=[]),t[r]?.push(o)}function*me(e){let{slot:t,plugins:o,supportedToDeprecatedSlots:r=ie}=e,i=r[t];for(let[n,c]of o.entries()){let s=c.ui;if(!s)continue;let l=s[t];if(l){yield[n,l];continue}if(i)for(let a of i){let p=c.ui?.[a];if(p){yield[n,p],console.warn(`Plugin ${c.id} used deprecated slot "${a}". 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Ne(e){let{subRoots:t,selector:o}=e;if(!o)return;let{root:r}=o;if(r)return t.get(r)}import{FileCollection as Nt}from"file-collection";async function be(e){let{source:t,plugins:o,options:r={},sourceId:i=crypto.randomUUID()}=e,{converter:n,...c}=r,s={...t,id:i},l={spectra:[],molecules:[]},a=await Nt.fromSource(s,{unzip:{zipExtensions:["zip","nmredata"]}}),{spectra:p=[],molecules:m=[]}=await L(a,o,{converter:{...n,bruker:{keepFiles:!0,...Reflect.get(n??{},"bruker")}},...c});l.spectra.push(...p),l.molecules.push(...m);for(let g of l.spectra)g.selector??={root:i},g.selector.root=i;for(let g of l.molecules)g.selector??={root:i},g.selector.root=i;l.sources??=[],l.sources.push(s);let u=T({version:13,data:l},r?.selector?.general),{onLoadProcessing:f}=c,d={filters:f?.filters,autoProcessing:f?.autoProcessing??!1,experimentalFeatures:r.experimentalFeatures};return E({nmriumState:u,plugins:o,options:d}),[u,a,i]}function M(e,t){let o={};for(let r in e)t.includes(r)||(o[r]=e[r]);return o}var bt=["data","originalData","info","originalInfo","meta","customInfo"],Rt=["data","originalData","info","originalInfo","meta","customInfo"],Ot=["selector","originalData","originalInfo"];function Re(e,t,o={}){let{version:r,data:i}=e;if(i.actionType)return e;let n={version:r,plugins:e.plugins},{includeData:c,forceRawSpectra:s=[]}=o;c!=="noData"&&(n.data=It({...i},c,s));let{includeSettings:l,includeView:a}=o;return l&&(n.settings=e.settings),a&&(n.view=e.view),O(n,t),n}function It(e,t="rawData",o){let{spectra:r}=e;switch(t){case"dataSource":return Dt(e);case"selfContained":case"selfContainedExternalDatasource":return vt(e,o);case"rawData":return{...M(e,["sources"]),spectra:r.map(Oe)};default:return e}}function Dt(e){let{spectra:t}=e;if(!e.sources)throw new Error("sources property should exists for dataSource serialization");return{...e,spectra:t.map(Mt)}}function vt(e,t){let{spectra:o,sources:r,...i}=e;return{...i,spectra:o.map(n=>Ct(n,t))}}function Mt(e){return M(e,bt)}function Ct(e,t){return!("selector"in e)||t?.includes(e.id)?Oe(e):M(e,Rt)}function Oe(e){let{data:t,info:o,originalData:r,originalInfo:i}=e,n=M(e,Ot);return n.data=r||t,n.info=i||o,n}import{FileCollection as At}from"file-collection";async function Ie(e,t){let{state:o,aggregator:r,externalData:i="embedded",includeData:n=!0,includeSettings:c,includeView:s}=t,{spectra:l,molecules:a}=o.data,p=new At({filter:{ignoreDotfiles:!1}});return n&&p.appendFileCollection(r),p.toIum({includeData:i==="embedded",mimetype:"chemical/x-nmrium+zip",*getExtraFiles(m){yield{relativePath:"META-INF/NMRIUM_ARCHIVE",data:""},yield{relativePath:"META-INF/VERSION",data:"1"},yield{relativePath:"state.json",data:wt(e,o,r,{externalData:i,includeData:n,includeView:s,includeSettings:c})},yield{relativePath:"index.txt",data:Ft({aggregator:r,spectra:l,molecules:a,index:m})}}})}function wt(e,t,o,r){let{includeData:i,includeView:n,includeSettings:c,externalData:s="embedded"}=r,l="noData";i&&(l=s==="embedded"?"selfContained":"selfContainedExternalDatasource");let a=[];if(l!=="noData")for(let u of t.data?.spectra??[]){let f=u.selector?.root;f&&o.subroot(f).files.length>0||a.push(u.id)}let p=e(t,{includeData:l,includeView:n,includeSettings:c,forceRawSpectra:a}),m=JSON.stringify(p,(u,f)=>ArrayBuffer.isView(f)?Array.from(f):f,2);return new Blob([m],{type:"application/json"})}function Ft(e){let{aggregator:t,spectra:o,molecules:r,index:i}=e,n=new Map,c=new Map(i.sources.map(l=>[l.uuid,l]));for(let l of o){let a=l.selector?.root;a&&(n.has(a)||n.set(a,t.subroot(a)))}for(let l of r){let a=l.selector?.root;a&&(n.has(a)||n.set(a,t.subroot(a)))}let s=[];for(let[l,a]of n.entries()){let p=new Map(a.sources.map(u=>[u.uuid,u])),m=`data/${l}/`;s.push(m);for(let u of a.files){let f=c.get(u.sourceUUID),d=p.get(u.sourceUUID),g=f?.baseURL?.startsWith("ium:/")?"embedded":"linked",y=i.paths[u.sourceUUID]?.replace(m,""),P=u.relativePath.replace(d?.relativePath??"",""),x=y?y+P:u.relativePath;s.push(` ${x} (${g})`)}s.push(`
|
|
5
5
|
`)}return s.join(`
|
|
6
|
-
`)}var se=class{version=13;#e=new Map;registerPlugin(t){if(this.#e.has(t.id)){console.warn(`Plugin ${t.id} is already registered. skip.`),console.debug("Plugin already registered:",this.#e.get(t.id)),console.debug("Plugin to register:",t);return}this.#e.set(t.id,t)}registerPlugins(t){for(let o of t)this.registerPlugin(o)}migrate(t){return pe(t,this.version,this.#e)}read(t,o={},r){return v({input:t,options:o,fromSourceOptions:r,migrator:this.migrate.bind(this),plugins:this.#e})}readNMRiumArchive(t,o={}){return
|
|
6
|
+
`)}var se=class{version=13;#e=new Map;registerPlugin(t){if(this.#e.has(t.id)){console.warn(`Plugin ${t.id} is already registered. skip.`),console.debug("Plugin already registered:",this.#e.get(t.id)),console.debug("Plugin to register:",t);return}this.#e.set(t.id,t)}registerPlugins(t){for(let o of t)this.registerPlugin(o)}migrate(t){return pe(t,this.version,this.#e)}read(t,o={},r){return v({input:t,options:o,fromSourceOptions:r,migrator:this.migrate.bind(this),plugins:this.#e})}readNMRiumArchive(t,o={}){return he({input:t,options:o,plugins:this.#e,migrator:this.migrate.bind(this)})}readNMRiumObject(t,o,r){return V({nmriumObjectInput:t,options:o,fromSourceOptions:r,plugins:this.#e,migrator:this.migrate.bind(this)})}readNMRiumFile(t,o={},r){return _({file:t,options:o,fromSourceOptions:r,plugins:this.#e,migrator:this.migrate.bind(this)})}readFromWebSource(t,o){return be({source:t,options:o,plugins:this.#e})}serializeNmriumState(t,o){return Re(t,this.#e,o)}serializeNmriumArchive(t){let o=this.serializeNmriumState.bind(this);return Ie(o,t)}serializePlugins(){let t={plugins:{}};return O(t,this.#e),t.plugins}slot(t){return me({slot:t,plugins:this.#e})}};function Tt(e,t){if(t>13)return 0;let o=-1;for(let r=0;r<e.length;r++)if(e[r].version>t){o=r;break}return o}var De=[{version:6,fun:A},{version:7,fun:w}];function Et(e){let{version:t}=e||{},o=Tt(De,t);if(o===-1)return{...e,version:13};let r=De.slice(o);for(let i of r)e=i.fun(e);return e}export{ve as ANALYSIS_COLUMN_TYPES,Me as ANALYSIS_COLUMN_VALUES_KEYS,h as CURRENT_EXPORT_VERSION,Ae as EXTERNAL_API_KEYS,se as NMRiumCore,Ze as defineNMRiumPlugin,Ye as formatSpectra,b as generateID,W as getOneIfArray,Et as migrateSettings,Ce as units};
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@zakodium/nmrium-core",
|
|
3
|
-
"version": "0.6.
|
|
3
|
+
"version": "0.6.2",
|
|
4
4
|
"description": "The core of NMRium: types, state, state migration and plugin system.",
|
|
5
5
|
"author": "Zakodium Sàrl",
|
|
6
6
|
"license": "CC-BY-NC-SA-4.0",
|
|
@@ -29,6 +29,7 @@
|
|
|
29
29
|
"@zakodium/nmr-types": "^0.5.1",
|
|
30
30
|
"esbuild": "^0.27.0",
|
|
31
31
|
"jest-matcher-deep-close-to": "^3.0.2",
|
|
32
|
+
"react-science": "^19.7.1",
|
|
32
33
|
"rimraf": "^6.1.2",
|
|
33
34
|
"typescript": "~5.9.3",
|
|
34
35
|
"vitest": "^4.0.17"
|
|
@@ -45,5 +46,5 @@
|
|
|
45
46
|
"volta": {
|
|
46
47
|
"extends": "../../../package.json"
|
|
47
48
|
},
|
|
48
|
-
"gitHead": "
|
|
49
|
+
"gitHead": "e66cb34d09917e88a12148a89951e2705f4321c9"
|
|
49
50
|
}
|