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![The file was added The file was added](/jenkins/static/b611b658/images/16x16/document_add.png) | img/eml.png |
![The file was removed The file was removed](/jenkins/static/b611b658/images/16x16/document_delete.png) | eml-literature.png |
![The file was added The file was added](/jenkins/static/b611b658/images/16x16/document_add.png) | img/eml-software.png |
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![The file was added The file was added](/jenkins/static/b611b658/images/16x16/document_add.png) | img/eml-party.png |
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![The file was added The file was added](/jenkins/static/b611b658/images/16x16/document_add.png) | img/eml-spatialVector.png |
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Commit
ef773b33b9d2c8484e5fc8c5af49fe5f108e4016
by gitcodeRefactor build to switch to 2.2.0 version. This includes fixes to docbook generation for the new xsd and img directory structures, and updatting the eml-spatialReferenceDictionary.xml to use the 2.2.0 namespace (partial fix for issu #264).
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | build.xml (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | buildDependencyTable.xsl (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-project.xsd (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-attribute.xsd (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | README.md (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-documentation.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-party.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-text.xsd (diff) |
Commit
62b60f9f755dd118a3f20029c816c5baf52c78ce
by petridishChange usage of personnel to individuals Because the word personnel connotes employment at an organization, I think a more inclusive term should be used. This is related to expanding the the document of userId/directory for web identifiers such as ORCID in #260.
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | eml-party.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | eml-faq.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-semantics.xsd (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-attribute.xsd (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-entity.xsd (diff) |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-resource.xsd (diff) |
Commit
8c0b3455c3442fe48d7b24cc673411b3fd21d8bb
by gitcodeAdded annotation fields to example document. Continuing work on issue #25, this commit now allows the new annotation fields to be demonstrated. The eml-sample.xml document validates using xerces.
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | src/test/resources/eml-sample.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | eml-spatialReferenceDictionary.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-dataset.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | README.md (diff) |
Commit
772a0964eb62c9fd2baf5518777395a013b6dca3
by gitcodeAdded `award` field. Added first version of a new `award` field to the eml-project schema to add info that can be used to reference funding information for the projet. This provides the first implementation of the `award` field, including the award title, identifier, and open funder registry identifier. These proposed additions are partial implementations for issue #266.
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![The file was added The file was added](/jenkins/static/b611b658/images/16x16/document_add.png) | other/registry.rdf |
![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-project.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | lib/sample/eml-sample.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | lib/sample/eml-sample.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-dataset.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | xsd/eml-dataset.xsd (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | eml-faq.xml (diff) |
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![The file was modified The file was modified](/jenkins/static/b611b658/images/16x16/document_edit.png) | buildDocBook.xsl (diff) |
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Commit
f24b8780b5418e56dc452be391f76216b280a53c
by gitcodeModified build to allow building docs offline. Previous docs made references to DTD files on OASIS servers. Removed so that the build can work offline. DTD DOCTYPE references seem superfluous for our purposes.
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Commit
2979d5ccf2ef4109ab830a505e5565709deb10b0
by gitcodeAdd a local copy of xml.xsd. The version 2.1.1 internationalization changes introduced the need for adding the xml.xsd file to support `xml:lang` attributes on internationalized text strings. However, the schema import pointed at a network location of the schema file, which prevents validation when offline. Adding xml.xsd to the schema dir and referencing the local copy allows offline validation to succeed and prevents injection attacks on the remote schema file. Need to verify that this is the right version of xml.xsd.
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Commit
54c7cd797dd3310630c197160e2882a4526c1be1
by gitcodeDrafted new fields for data paper support. This includes a new `markdown` element in `txt:TextType` to support Github flavored markdown. And new elements for an introduction, gettingStarted, and acknowledgements. See issue #269 and #275.
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Commit
733a650e43d4d31ca6ed04d71e1326687209a79b
by gitcodeChanged `propertyURI` and label to optional. Added documentation to indicate that, when propertyURI is not provided, then the property defaults to dc:subject for resources and entities, and to oboe:MeasurementType for attributes.
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Commit
3beb10b2850fccf66789253041563d53a4ccbecf
by gitcodeAdded support for new citation formats, fields, and inline citations. These include a new ability to use Bibtex citation format both within the `citation` element, and within a new `bibtex` element, to create lists of refs using these in a literatureCited element (#300), as well as in usageCitation (#259), and referencePublication (#277) elements. All of this helps support data papers (#269), for which pandoc-style citation keys can be used to cite these references in the text of Markdown blocks in the EML document. Added these features as demonstrations in the eml-data-paper.xml sample document.
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Commit
6c0da2874e96601bd440ed2c3de4fc59bf0414f5
by ssfchongadd MeasurementType annotations to percent cover and biomass attributes Added the measurement type semantic annotations to the 'percent cover' (att.4) and 'biomass' (att.12) attributes.
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Commit
a7cc50c457f61a08f6b76a3281b8923cf79158a5
by gitcodeAdded test files for annotations. These tests are not passing, because they illustrate issues that the EML parser should deal with with annotation references but currently does not handle.
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Commit
97e8c76dedd134b690b760a3607a6c248cf619b7
by gitcodeAdded new jar for the EMLValidator. Note that the EMLValidator is not yet complete, but has a subset of the rules implemented. Which is why tests are not now passing. I will return to this shortly and finish off the rest of the validation rules.
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Commit
d60f2b6281ca4ad469ef37b9eaebca2e6a589b40
by noreplyadd example dataset annotation, fixed formatting Added sample code to show an annotation example in the dataset element. The spacing format in the EML attribute element sample code was also edited.
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Commit
8d3da64f528449c271e6c280e686698da404c28e
by noreplyclarify explanations about subjects and ID values Clarified that the id attribute value itself is not the subject in a semantic statement, but rather refers to the subject. The subject is the element containing the id.
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Commit
3896ff8516451cde272b614ea81de31ef2d755cc
by petridishFix minor issues with Oxygen doc build script - Most major thing is that the config went from command line params to an external config (-cfg arg) which allows a little more tweaking than just the command line args - Fixed issue with final cp -r command that'd fail for me - Fixed various minor issues with string escaping and subprocesses - Added set -e and pipefail because bash
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Commit
85b8b8df6c403a3d3c5e090556313d805a1ab973
by gitcodeMoved EML module files to new subdirectory. Now the main test directory contains only complete EML files. Module level files should go into moduleEML, and will only be tested against the SAX parser, as they will no longer pass the test for EMLValidator.
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Commit
26af18e106752cb75cc3f8f96984b3410dfbfb36
by gitcodeRestore the EMLParser, exceptions, and tests. In the process, cleaned up some of the dead code, and modified tests sso that EMLParserTest doesn't fail on invalid docs. Next step is to refactor EMLParser to use EMLValidator for EML 2.2.0 and later docs.
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Commit
4dbbb1558b3ac63552f074ad7db3916c11b6227e
by gitcodeWhen parsing a String using EMLParser, delegate to EMLValidator. Now EMLValidator is used for validating from the String constructor to EMLParser(String) in addition to the File constructor, at least for EML after 2.2.0.
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Commit
ff1642c7f35b55dd4e3d8361f6c653a5acc89830
by gitcodeAdded 2.2.0 to the namespaces config variable. This broke the tests because the schemas are not on ecoinfo yet, and so I added code to the JUnit tests to determine the current release version being tested and instead use the local `xsd/eml.xsd` file for that namespace.
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Commit
361fc30674a7e647163a5cac3b24bb65202c9644
by taoAdd the dataone maven repository. Change the utilities version from 2.0.0-snapshot to 2.0.0. NEED TODO: change the version of the library from 0.9.1-snapshot to 0.9.1.
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Commit
df934753c7771cb6cd49805e108aa754beac6ce9
by noreplyupdated primer, but Steven had also made revs made some changes to top 65 lines or so, especially regarding setting up concrete example of an RDF triple, and talking about URI's and URL's
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Commit
f589d4df9858ab9e1f420236333a43c73e676aae
by noreplysome further revs to intro section tried to make intro section a synoptic statement of the motivation and approach for enabling semantic annotation of EML, with a simple concrete example of an RDF triple, and how URI's provide very powerful annotations onto EML elements.
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Commit
a5c844369e49354f9b606e27ef81f338c57d2d50
by noreplyclarifying object property is a predicate ...trying to avoid confusion about words: subject, predicate, object-- e.g. using "subject" as a predicate, or referring to a predicate as an "object property"-- even though these are valid uses...
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Commit
4d4d76a1a64eb3f8ee9551c7acc0d34181bacc6b
by noreplyadded comments to intro Addressing Margaret's note about whether to separate RDF/semantic annotation intro from rest of document. I've added sentence to recommend those already understanding basics of Semantic WEb to skip directly to section on how to embed annotations in EML.
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Commit
c79668d001efac3a17b09b834b68f7c4d422e184
by noreplyremoved table mapping triple to EML Removed the table that mapped each triple component to their EML analog. Don't think it added much more than what is already stated in the text.
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Commit
b695b0362801b2ed387c455a89831e5a458740ed
by gitcodeUpdate README. Fixes URLs in the list, adds ORCID to the simple example, changes the developmet section to reflect new practices, adds detail in the history section, and updates the fuding section. Add a XML doc that ensures the README example validates.
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Commit
b1b77f755b9e014bd437e21c6f2fff5085bbbb63
by gitcodeUpdate EML schemas to use new https-based namespace. The new namespace is of the form `https://eml.ecoinformatics.org/eml-2.2.0`. XSD files, stylesheets, and test documents were updated. Work related to issue #341.
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Commit
808fb1f96ac1d7c4dd9bde8d8b4a6be3f87f4af4
by petridishAdd Oxygen docs to book and tweak the book build I built the Oxygen docs with our build script and commit them here and also integrate them into the Bookdown book with a custom build script. The new build script does two things: 1. Renames the HTML output of ../README.md which we want to use as the index.html of the book. A custom build script has to do this because Bookdown tries to use the top level header of the file as the filename but we want to use index.html so the book works nicely. 2. Copies in the Oxygen docs into the build book
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Commit
c40bb61dac0e7216419fa6ab5784ca5f3f8096af
by noreplyremove semantics content Removed the Q's relating to semantics because they were outside the scope of this FAQ. The Q's and A's have been transferred to the semantic annotation primer.
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Commit
d9b88f41e3e05ddb924bef751b79ea194a0f3431
by noreplycontinuing with revisions to Sem Primer I've made some changes so when I'm through (hopefully today) will need Margaret and Steven to re-read and discuss before passing on for more extended review/commentary
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Commit
bfecaeb9028dd0d2969ccf5f86ff481307a86653
by gitcodeRegenerated schema docs with proper ns, and added to book. Current schema docs are now in chapter 9 of the book in an iframe, but the frame is sized incorrectly to properly display the pages. Look into adjustinng CSS for that iframe.
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Commit
42584d576023ef8d31c6f2007b560118a2ff0b62
by gitcodeAdd shell script for getting the current list of GitHub issues for a milestone. Useful for building the release notes. Could be formatted in the GHM format we need for the release notes, but left as an exercise for the reader.
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Commit
977144775c0c6b19923d27f765503c209157177a
by gitcodeRearrange chapters to have all modules in one chapter. Also, fix the links to the overall schema interactive docs, and suppress warnings on the builds. Images and schemas are now fully complete.
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Commit
ee2567e31fc6a4ec6cb7552423df896a5146eff1
by gitcodeUpdate the deploy script. THe script now builds the distribution site from scratch by running the build_book.R script, and then copies source files like images and schema docs and xsd files into the dist directory. The dist directory is then added to a temporary branch, and pushed to gh_pages to be picked up by Netlify. The temporary branch is then deleted, and we switch back to the branch from which the original docs were built.
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Commit
5f3fccd9e09e96838f9fb3618aef3096b2c15ef2
by gitcodeAdd a codemeta.json file and a bibtext citation. The codemeta.json file is included in the HTML of the generated book, and the Bobtex entry is made available through a 'Copy Bibtex' button.
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