cgspace-notes/content/posts/2020-04.md

---
title: "April, 2020"
date: 2020-04-02T10:53:24+03:00
author: "Alan Orth"
categories: ["Notes"]
---

## 2020-04-02

- Maria asked me to update Charles Staver's ORCID iD in the submission template and on CGSpace, as his name was lower case before, and now he has corrected it
  - I updated the fifty-eight existing items on CGSpace
- Looking into the items Udana had asked about last week that were missing Altmetric donuts:
  - [The first](https://hdl.handle.net/10568/103225) is still missing its DOI, so I added it and [tweeted its handle](https://twitter.com/mralanorth/status/1245632619661766657) (after a few hours there was a donut with score 222)
  - [The second item](https://hdl.handle.net/10568/106899) now has a donut with score 2 since I [tweeted its handle](https://twitter.com/mralanorth/status/1243158045540134913) last week
  - [The third item](https://hdl.handle.net/10568/107258) now has a donut with score 1 since I [tweeted it](https://twitter.com/mralanorth/status/1243158786392625153) last week
- On the same note, the [one item](https://hdl.handle.net/10568/106573) Abenet pointed out last week now has a donut with score of 104 after I [tweeted it](https://twitter.com/mralanorth/status/1243163710241345536) last week

<!--more-->

- Altmetric responded about [one item](https://hdl.handle.net/10568/101286) that had no donut since at least 2019-12 and said they fixed some problems with their bot's user agent
  - I decided to [tweet the item](https://twitter.com/mralanorth/status/1245703049445851140), as I can't remember if I ever did it before

## 2020-04-05

- Update PostgreSQL JDBC driver to version 42.2.12

## 2020-04-07

- Yesterday Atmire sent me their [pull request for DSpace 6 modules](https://github.com/ilri/DSpace/pull/445)
- Peter pointed out that some items have his ORCID identifier (`cg.creator.id`) twice
  - I think this is because my early `add-orcid-identifiers.py` script was adding identifiers to existing records without properly checking if there was already one present (at first it only checked if there was one with the exact `place` value)
  - As a test I dropped all his ORCID identifiers and added them back with the `add-orcid-identifiers.py` script:

```
$ psql -h localhost -U postgres dspace -c "DELETE FROM metadatavalue WHERE resource_type_id=2 AND metadata_field_id=240 AND text_value LIKE '%Ballantyne%';"
DELETE 97
$ ./add-orcid-identifiers-csv.py -i 2020-04-07-peter-orcids.csv -db dspace -u dspace -p 'fuuu' -d
```

- I used this CSV with the script (all records with his name have the name standardized like this):

```
dc.contributor.author,cg.creator.id
"Ballantyne, Peter G.","Peter G. Ballantyne: 0000-0001-9346-2893"
```

- Then I tried another way, to identify all duplicate ORCID identifiers for a given resource ID and group them so I can see if count is greater than 1:

```
dspace=# \COPY (SELECT DISTINCT(resource_id, text_value) as distinct_orcid, COUNT(*) FROM metadatavalue WHERE resource_type_id = 2 AND metadata_field_id = 240 GROUP BY distinct_orcid ORDER BY count DESC) TO /tmp/2020-04-07-duplicate-orcids.csv WITH CSV HEADER;
COPY 15209
```

- Of those, about nine authors had duplicate ORCID identifiers over about thirty records, so I created a CSV with all their name variations and ORCID identifiers:

```
dc.contributor.author,cg.creator.id
"Ballantyne, Peter G.","Peter G. Ballantyne: 0000-0001-9346-2893"
"Ramirez-Villegas, Julian","Julian Ramirez-Villegas: 0000-0002-8044-583X"
"Villegas-Ramirez, J","Julian Ramirez-Villegas: 0000-0002-8044-583X"
"Ishitani, Manabu","Manabu Ishitani: 0000-0002-6950-4018"
"Manabu, Ishitani","Manabu Ishitani: 0000-0002-6950-4018"
"Ishitani, M.","Manabu Ishitani: 0000-0002-6950-4018"
"Ishitani, M.","Manabu Ishitani: 0000-0002-6950-4018"
"Buruchara, Robin A.","Robin Buruchara: 0000-0003-0934-1218"
"Buruchara, Robin","Robin Buruchara: 0000-0003-0934-1218"
"Jarvis, Andy","Andy Jarvis: 0000-0001-6543-0798"
"Jarvis, Andrew","Andy Jarvis: 0000-0001-6543-0798"
"Jarvis, A.","Andy Jarvis: 0000-0001-6543-0798"
"Tohme, Joseph M.","Joe Tohme: 0000-0003-2765-7101"
"Hansen, James","James Hansen: 0000-0002-8599-7895"
"Hansen, James W.","James Hansen: 0000-0002-8599-7895"
"Asseng, Senthold","Senthold Asseng: 0000-0002-7583-3811"
```

- Then I deleted *all* their existing ORCID identifier records:

```
dspace=# DELETE FROM metadatavalue WHERE resource_type_id=2 AND metadata_field_id=240 AND text_value SIMILAR TO '%(0000-0001-6543-0798|0000-0001-9346-2893|0000-0002-6950-4018|0000-0002-7583-3811|0000-0002-8044-583X|0000-0002-8599-7895|0000-0003-0934-1218|0000-0003-2765-7101)%';
DELETE 994
```

- And then I added them again using the `add-orcid-identifiers` records:

```
$ ./add-orcid-identifiers-csv.py -i 2020-04-07-fix-duplicate-orcids.csv -db dspace -u dspace -p 'fuuu' -d
```

- I ran the fixes on DSpace Test and CGSpace as well
- I started testing the [pull request](https://github.com/ilri/DSpace/pull/445) sent by Atmire yesterday
  - I notice that we now need `yarn` to build, and I need to bump the Node.js `engine` version in our Mirage 2 theme in order to get it to build on Node.js 10.x


<!-- vim: set sw=2 ts=2: -->