xpub-epmc issueshttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues2019-06-04T15:26:29Zhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/841Searching GRIST API with backslashes in grant IDs fails2019-06-04T15:26:29ZMichael ParkinSearching GRIST API with backslashes in grant IDs failsThe funder 'Academy of Medical Sciences' use backslashes in their grant IDs. The GRIST API doesn't handle these well, and converts them to forward slashes in the response. E.g. CSF004\1001
https://europepmc.org/grantfinder/grantdetails?...The funder 'Academy of Medical Sciences' use backslashes in their grant IDs. The GRIST API doesn't handle these well, and converts them to forward slashes in the response. E.g. CSF004\1001
https://europepmc.org/grantfinder/grantdetails?query=pi:%22Church+D%22+gid:%22CSF004%5C1001%22+ga:%22Academy+of+Medical+Sciences%22
Searching for this grant will not give a hit.
The appropriate URL encoding is '%255c'.
Searching for 'DTF008%255c1002' gives the error `We're experiencing a problem with our grants search. Please try again later.`.
Could someone see if they can add 'Academy of Medical Sciences' grants successfully to a submission, and advise whether this is something that can be handled by the MSS, or whether the GRIST API needs fixing instead to handle backslashes.
Please note that searching by PI and adding the grant works correctly.XINGJUN PIXINGJUN PIhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/800File upload - how is bibliography labeled?2019-08-01T07:34:38ZLynne FaulkFile upload - how is bibliography labeled?During the file upload process, the user was unsure what file type to assign the Bibliography document. When this section is remade, perhaps we need to clarify this with the copy.During the file upload process, the user was unsure what file type to assign the Bibliography document. When this section is remade, perhaps we need to clarify this with the copy.https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/528PDF viewer - Preview and final proof pages2019-08-01T07:34:44ZLynne FaulkPDF viewer - Preview and final proof pages### Story description: The PDF viewer could use some refinements. Testing showed it was awkward to use and did not act as expected. It also doesn't look like the rest of the design.
(Include ref number)
### Acceptance criteria:
(List ...### Story description: The PDF viewer could use some refinements. Testing showed it was awkward to use and did not act as expected. It also doesn't look like the rest of the design.
(Include ref number)
### Acceptance criteria:
(List acceptance criteria/what feature should accomplish)
Follow design: https://invis.io/84R78LIDZNW#/351342964_C1-Submitter-Preview_1
### Subtasks:
- [ ] Subtask 1: Use same font and icon style in PDF viewer header bar that we use elsewhere, use blue for links as elsewhere.
- [ ] Subtask 2: Increase depth of PDF viewer header bar to be more aligned with spacing we use elsewhere
- [ ] Subtask 3: Put full screen icon to left of text, to match style used elsewhere
- [ ] Subtask 4: Delete "scale to fit". This wasn't findable in testing, and I would argue that it needs to happen automatically when the window is reduced or enlarged. This expectation was also borne out in testing.
- [ ] Subtask 5: Delete the percentage indicator, I don't see why that's needed and it adds cognitive load
- [ ] Subtask 6: Use feature icons for reducing and enlarging, make them larger and blue, and have them stand on their on, not within a button
(link to subtasks when available!)https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/940XSweet - bold text is not bold2020-01-09T16:15:36ZAudrey HamelersXSweet - bold text is not bold<img src="https://gitlab.coko.foundation/xpub/xpub-epmc/uploads/8680353e876d4cb71cfcf7c496e7ed37/image.png"><img src="https://gitlab.coko.foundation/xpub/xpub-epmc/uploads/8680353e876d4cb71cfcf7c496e7ed37/image.png">Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/934Xsweet does not render tables correctly2020-01-09T16:15:42ZDavid StephensonXsweet does not render tables correctlyXsweet isn't very good at rendering tables from .docx files. Can we get this improved?
This is how the table looks in the .docx:
![image](/uploads/79a999b6a265c278e3afabd3def0c499/image.png)
This is how the table looks in the xsweet pr...Xsweet isn't very good at rendering tables from .docx files. Can we get this improved?
This is how the table looks in the .docx:
![image](/uploads/79a999b6a265c278e3afabd3def0c499/image.png)
This is how the table looks in the xsweet preview
![image](/uploads/cb0bdfead12b2fb42f7b988e6259022b/image.png)Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/933Xsweet does not render equations correctly in preview2020-01-09T16:15:39ZDavid StephensonXsweet does not render equations correctly in previewA few users have pointed out that the xsweet preview does not do a good job. (see below). This needs to be improved.
Submitters manuscript:
![image__4_](/uploads/18ad7d49cb7ea2a0287aba4558cc420f/image__4_.png)
preview:
![image__5_](/u...A few users have pointed out that the xsweet preview does not do a good job. (see below). This needs to be improved.
Submitters manuscript:
![image__4_](/uploads/18ad7d49cb7ea2a0287aba4558cc420f/image__4_.png)
preview:
![image__5_](/uploads/2e3c10eae62e7140ec44f8039da6d2bd/image__5_.png)
(examples taken from EMS85114)Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/125Add links to grant and ORCID linking tools2019-01-21T14:25:01ZAudrey HamelersAdd links to grant and ORCID linking toolsAdd links to grant and ORCID linking tools
1. from the page if manuscript is already in EPMC.
2. When article is published/sent to PMCAdd links to grant and ORCID linking tools
1. from the page if manuscript is already in EPMC.
2. When article is published/sent to PMChttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/63XSweet - Images are missing in the preview section2020-01-09T16:15:31ZRakesh NambiarXSweet - Images are missing in the preview sectionImages are missing in the preview section.
try with the attached file as the manuscript [Scilite-API.docx](/uploads/c293d79c9a7b34b2635b78482af1fdd7/Scilite-API.docx).
See https://gitlab.coko.foundation/XSweet/XSweet/issues/110Images are missing in the preview section.
try with the attached file as the manuscript [Scilite-API.docx](/uploads/c293d79c9a7b34b2635b78482af1fdd7/Scilite-API.docx).
See https://gitlab.coko.foundation/XSweet/XSweet/issues/110Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/949Add internal XML QA stats to Admin Metrics page2020-02-25T08:42:54ZMichele Ide-SmithAdd internal XML QA stats to Admin Metrics pageI'd like to add the number of manuscripts which undergo internal (Helpdesk) XML QA each month here: https://plus.europepmc.org/admin-metrics
@XP Has already done a query to add the numbers to a spreadsheet here: https://docs.google.com/...I'd like to add the number of manuscripts which undergo internal (Helpdesk) XML QA each month here: https://plus.europepmc.org/admin-metrics
@XP Has already done a query to add the numbers to a spreadsheet here: https://docs.google.com/spreadsheets/d/1xzsZoxbJbrS6GxNG3nv4ZC-NU_VerzYgUU07uucOxiY/edit?usp=sharing
This is useful management information for the 2021-2026 grant application.2020-03-06https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/926Improve admin metrics2020-01-06T11:01:48ZAudrey HamelersImprove admin metricsAllow more granularity of querying to reduce page load times.
Currently the full last year is loaded. Only the last 5 months should be queried on page load, and then more months should only be loaded on request.
Potentially we could ad...Allow more granularity of querying to reduce page load times.
Currently the full last year is loaded. Only the last 5 months should be queried on page load, and then more months should only be loaded on request.
Potentially we could add more refined date filtering as well, if there's an admin need for that.Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/921NLM abbrevations/name varients of journals indexed by NLM need to be findable...2020-01-23T16:44:10ZDavid StephensonNLM abbrevations/name varients of journals indexed by NLM need to be findable for usersA recurrent problem is that the autocomplete for journals only displays the main title, and none of the varients.
This makes it harder for users (including helpdesk!) to add journals to submissions.
Eg."Otology & neurotology" brings u...A recurrent problem is that the autocomplete for journals only displays the main title, and none of the varients.
This makes it harder for users (including helpdesk!) to add journals to submissions.
Eg."Otology & neurotology" brings up the correct title, but the NLM title "Otol Neurotol" does not return any results, and neither does Other Title(s): "Otology and neurotology"
Can we have title variants appear in the journal picker?
Thanks!Work package 19Koosum Y RoochunKoosum Y Roochunhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/886Tagger Export - The utility is excluding the duplicate files2020-01-06T10:37:43ZRakesh NambiarTagger Export - The utility is excluding the duplicate filesThe utility is excluding the duplicate files.
Refer the comments in #878 for more detail.
![image](/uploads/2ac0ac4f894c638d9de0276dc83e925e/image.png)The utility is excluding the duplicate files.
Refer the comments in #878 for more detail.
![image](/uploads/2ac0ac4f894c638d9de0276dc83e925e/image.png)Work package 19Audrey HamelersAudrey Hamelershttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/867File list carousel2020-01-06T10:37:40ZAudrey HamelersFile list carouselAllow us to cycle through attached images/files—It would be great for usability if there were arrow buttons allowing us move between images in the preview pane. (@davids @FranRogers)Allow us to cycle through attached images/files—It would be great for usability if there were arrow buttons allowing us move between images in the preview pane. (@davids @FranRogers)Work package 19Audrey HamelersAudrey Hamelershttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/776Site does not load in IE112020-01-06T10:49:31ZAudrey HamelersSite does not load in IE11Work package 19Yuci GouYuci Gouhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/771Request from bulk uploader to add in Publisher ID searching2020-01-07T15:23:13ZFrances RogersRequest from bulk uploader to add in Publisher ID searchingHello,
NPG have asked for the Publisher ID search facility to be added to the new plus, in the old system this did work most o fthe time. The Publisher ID is the code the bulk submitters use when uploading the files to the FTP site.
Fo...Hello,
NPG have asked for the Publisher ID search facility to be added to the new plus, in the old system this did work most o fthe time. The Publisher ID is the code the bulk submitters use when uploading the files to the FTP site.
For example on the the FTP site the package is NMED-L91523.tar.gz.loaded.mid-82765 the NMED-L91523 is the Publisher ID.
Not sure whether this would be possible and how to prioritise.Work package 19https://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/749XML Files - No validation in case of the duplicate tagger xml2020-01-06T10:37:32ZRakesh NambiarXML Files - No validation in case of the duplicate tagger xmlNo validation in case of the duplicate tagger xml. I modified the tagger xml and uploaded it again without deleting the old one (accidentally) and the system didn't show any error message. Also, the PDF conversion was successful.No validation in case of the duplicate tagger xml. I modified the tagger xml and uploaded it again without deleting the old one (accidentally) and the system didn't show any error message. Also, the PDF conversion was successful.Work package 19Audrey HamelersAudrey Hamelershttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/740Import citation information from .cit file2020-01-06T10:37:28ZAudrey HamelersImport citation information from .cit file| XML | New DB |
| ------ | ------ |
| `<volume>` | `meta,volume` |
| `<issue>` | `meta,issue` |
| `<fpage>` | `meta,fpage` |
| `<lpage>` | `meta,lpage` |
| `<elocationId>` | `meta,elocationId` |
| `<citeref-url>` | `meta,citerefUrl` |
|...| XML | New DB |
| ------ | ------ |
| `<volume>` | `meta,volume` |
| `<issue>` | `meta,issue` |
| `<fpage>` | `meta,fpage` |
| `<lpage>` | `meta,lpage` |
| `<elocationId>` | `meta,elocationId` |
| `<citeref-url>` | `meta,citerefUrl` |
| `<fulltext-url>` | `meta,fulltextUrl` |
| `<pub-date>` | `meta,publicationDates` |
| `<article-id>` | `meta,articleIds` |
Detail on pub-date and article-ids
`meta,publicationDates`
```xml
<pub-date pub-type="epub">
<year>2018</year>
<month>11</month>
<day>01</day>
</pub-date>
```
```json
[{
"pubIdType":"epub",
"date": moment.utc('2018 11 01', 'YYYY MM DD'),
"jatsDate": {
"year": 2018,
"month": 11,
"day": 01
}
}]
```
```xml
<pub-date pub-type="ppub">
<year>2018</year>
<season>Spring</season>
</pub-date>
```
```json
[{
"pubIdType":"ppub",
"date": moment.utc('2018', 'YYYY'),
"jatsDate": {
"year": 2018,
"season": "Spring
}
}]
```
`meta,articleIds`
```xml
<article-id pub-id-type="doi">10.1007/s11024-019-09368-3</article-id>
```
```json
[{
"type": "doi",
"id": "10.1007/s11024-019-09368-3",
}]
```Work package 19XINGJUN PIXINGJUN PIhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/530Use shared data model pubsweet package2020-01-06T10:37:25ZAudrey HamelersUse shared data model pubsweet packageReplace our use of the file `server/xpub-server/schema/xpub.graphqls` with the same file as a package imported from the pubsweet core. See https://gitlab.coko.foundation/xpub/shared-data-model/merge_requests/10#note_34233Replace our use of the file `server/xpub-server/schema/xpub.graphqls` with the same file as a package imported from the pubsweet core. See https://gitlab.coko.foundation/xpub/shared-data-model/merge_requests/10#note_34233Work package 19Yuci GouYuci Gouhttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/483New upload files - apply Hindawi upload files2020-01-06T10:37:21ZAudrey HamelersNew upload files - apply Hindawi upload fileshttps://gitlab.com/hindawi/xpub/xpub-review/tree/develop/packages/component-fileshttps://gitlab.com/hindawi/xpub/xpub-review/tree/develop/packages/component-filesWork package 19Audrey HamelersAudrey Hamelershttps://gitlab.coko.foundation/xpub/xpub-epmc/-/issues/451Review wizard improvements2020-01-06T10:37:19ZAudrey HamelersReview wizard improvements- [ ] Reviewers should be able to upload files
- [ ] Simplify the annotation animation. See storyboard here: https://projects.invisionapp.com/freehand/document/11YWS9HHp
- [ ] Admin needs provision to leave an "admin comment" on a report...- [ ] Reviewers should be able to upload files
- [ ] Simplify the annotation animation. See storyboard here: https://projects.invisionapp.com/freehand/document/11YWS9HHp
- [ ] Admin needs provision to leave an "admin comment" on a reported errorWork package 19Audrey HamelersAudrey Hamelers