jats-cli 1.0.18 → 1.1.1

package/README.md

@@ -94,6 +94,6 @@ As of v1.0.0 this package is [ESM only](https://gist.github.com/sindresorhus/a39
 <p style="text-align: center; color: #aaa; padding-top: 50px">
   Made with love by
   <a href="https://continuous.foundation" target="_blank" style="color: #aaa">
-    Continuous Science Foundation <img src="https://continuous.foundation/images/logo-small.svg" style="height: 1em" />
+    Continuous Science Foundation <img src="https://cdn.curvenote.com/static/site/csf/icon.svg" style="height: 1em" />
   </a>
 </p>

package/dist/convert.js

@@ -5,7 +5,10 @@ function makeConvertCLI(program) {
     const command = new Command('convert')
         .description('Convert JATS file to MyST mdast json')
         .argument('[input]', 'The JATS file')
-        .addOption(new Option('--frontmatter <frontmatter>', 'Treat JATS frontmatter fields as page or project, or ignore if not specified').choices(['page', 'project']))
+        .addOption(new Option('--frontmatter <frontmatter>', 'Treat JATS frontmatter fields as page or project')
+        .choices(['page', 'project'])
+        .default('project'))
+        .addOption(new Option('--no-frontmatter', 'Ignore JATS frontmatter'))
         .addOption(new Option('--no-doi, --no-dois', 'By default, DOIs are used for references when available, to be later resolved against doi.org. This option disables that behavior and creates bibtex entries for citations with DOIs.'))
         .addOption(new Option('--no-bib, --no-bibtex', 'By default, a bibtex file will be written with referenced citations. This option prevents writing that file'))
         .action(clirun(jatsConvert, { program, getSession }));

package/dist/download.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"download.d.ts","sourceRoot":"","sources":["../src/download.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAU,MAAM,WAAW,CAAC;AAqB5C,wBAAgB,cAAc,CAAC,OAAO,EAAE,OAAO,QAE9C"}
+{"version":3,"file":"download.d.ts","sourceRoot":"","sources":["../src/download.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAU,MAAM,WAAW,CAAC;AA0B5C,wBAAgB,cAAc,CAAC,OAAO,EAAE,OAAO,QAE9C"}

package/dist/download.js

@@ -7,7 +7,7 @@ function makeDownloadCLI(program) {
         .description('Download JATS from URL or identifier')
         .argument('<input>', 'URL or other article identifier')
         .addOption(new Option('-o, --output <output>', 'Output filename or folder'))
-        .addOption(new Option('--data', 'Attempt to fetch all data associated with JATS XML'))
+        .addOption(new Option('--no-data', 'Only attempt to fetch JATS XML, not full data associated with article.'))
         .addOption(new Option('--listing <listing>', 'Pointer to PMC listing file; if not provided, listing file will be downloaded and cached as needed'))
         .action(clirun(jatsFetch, { program, getSession }));
     return command;

package/dist/jats-test.js

@@ -1,6 +1,6 @@
 import { Command, Option } from 'commander';
 import { clirun, tic } from 'myst-cli-utils';
-import yaml from 'js-yaml';
+import { load, dump } from 'js-yaml';
 import fs from 'fs';
 import { select, selectAll } from 'unist-util-select';
 import { is } from 'unist-util-is';
@@ -9,14 +9,12 @@ import { getSession } from 'jats-xml';
 import { parseJats } from './parse.js';
 const INDENT = '       ';
 function printNodes(expected, received) {
-    return chalk.reset(`\n${INDENT}${chalk.greenBright('Expected node containing')}:\n${INDENT}  ${yaml
-        .dump(expected)
-        .replace(/\n/g, `\n${INDENT}  `)}\n${INDENT}${chalk.redBright('Received node')}:\n${INDENT}  ${yaml.dump(received).replace(/\n/g, `\n${INDENT}  `)}`);
+    return chalk.reset(`\n${INDENT}${chalk.greenBright('Expected node containing')}:\n${INDENT}  ${dump(expected).replace(/\n/g, `\n${INDENT}  `)}\n${INDENT}${chalk.redBright('Received node')}:\n${INDENT}  ${dump(received).replace(/\n/g, `\n${INDENT}  `)}`);
 }
 export async function testJatsFile(session, file, opts) {
     const toc = tic();
     const jats = await parseJats(session, file);
-    const tests = yaml.load(fs.readFileSync(opts.cases).toString());
+    const tests = load(fs.readFileSync(opts.cases).toString());
     const results = tests.cases.map((testCase, index) => {
         if (!testCase.title) {
             return [`Test Case ${index}`, null, 'Test must include a title'];