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2019-10-11 10:19:42 +02:00
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< h1 class = "blog-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/" rel = "home" > CGSpace Notes< / a > < / h1 >
< p class = "lead blog-description" dir = "auto" > Documenting day-to-day work on the < a href = "https://cgspace.cgiar.org" > CGSpace< / a > repository.< / p >
2018-02-11 17:28:23 +01:00
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2020-05-02 09:08:14 +02:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2020-05/" > May, 2020< / a > < / h2 >
< p class = "blog-post-meta" > < time datetime = "2020-05-02T09:52:04+03:00" > Sat May 02, 2020< / time > by Alan Orth in
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
< / p >
< / header >
< h2 id = "2020-05-02" > 2020-05-02< / h2 >
< ul >
< li > Peter said that CTA is having problems submitting an item to CGSpace
< ul >
< li > Looking at the PostgreSQL stats it seems to be the same issue that Tezira was having last week, as I see the number of connections in ‘ idle in transaction’ and ‘ waiting for lock’ state are increasing again< / li >
< li > I see that CGSpace (linode18) is still using PostgreSQL JDBC driver version 42.2.11, and there were some bugs related to transactions fixed in 42.2.12 (which I had updated in the Ansible playbooks, but not deployed yet)< / li >
< / ul >
< / li >
< / ul >
< a href = 'https://alanorth.github.io/cgspace-notes/2020-05/' > Read more →< / a >
< / article >
2020-04-02 09:54:46 +02:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2020-04/" > April, 2020< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2020-04-02T10:53:24+03:00" > Thu Apr 02, 2020< / time > by Alan Orth in
2020-04-02 09:54:46 +02:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
< / p >
< / header >
< h2 id = "2020-04-02" > 2020-04-02< / h2 >
< ul >
2020-04-02 11:33:41 +02:00
< li > 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
< ul >
< li > I updated the fifty-eight existing items on CGSpace< / li >
< / ul >
< / li >
< li > Looking into the items Udana had asked about last week that were missing Altmetric donuts:
< ul >
2020-04-02 15:30:44 +02:00
< li > < a href = "https://hdl.handle.net/10568/103225" > The first< / a > is still missing its DOI, so I added it and < a href = "https://twitter.com/mralanorth/status/1245632619661766657" > tweeted its handle< / a > (after a few hours there was a donut with score 222)< / li >
2020-04-02 11:33:41 +02:00
< li > < a href = "https://hdl.handle.net/10568/106899" > The second item< / a > now has a donut with score 2 since I < a href = "https://twitter.com/mralanorth/status/1243158045540134913" > tweeted its handle< / a > last week< / li >
< li > < a href = "https://hdl.handle.net/10568/107258" > The third item< / a > now has a donut with score 1 since I < a href = "https://twitter.com/mralanorth/status/1243158786392625153" > tweeted it< / a > last week< / li >
< / ul >
< / li >
< li > On the same note, the < a href = "https://hdl.handle.net/10568/106573" > one item< / a > Abenet pointed out last week now has a donut with score of 104 after I < a href = "https://twitter.com/mralanorth/status/1243163710241345536" > tweeted it< / a > last week< / li >
2020-04-02 09:54:46 +02:00
< / ul >
< a href = 'https://alanorth.github.io/cgspace-notes/2020-04/' > Read more →< / a >
< / article >
2020-03-02 11:38:10 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2020-03/" > March, 2020< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2020-03-02T12:31:30+02:00" > Mon Mar 02, 2020< / time > by Alan Orth in
2020-03-02 11:38:10 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
< / p >
< / header >
< h2 id = "2020-03-02" > 2020-03-02< / h2 >
< ul >
< li > Update < a href = "https://github.com/ilri/dspace-statistics-api" > dspace-statistics-api< / a > for DSpace 6+ UUIDs
< ul >
< li > Tag version 1.2.0 on GitHub< / li >
< / ul >
< / li >
< li > Test migrating legacy Solr statistics to UUIDs with the as-of-yet unreleased < a href = "https://github.com/DSpace/DSpace/commit/184f2b2153479045fba6239342c63e7f8564b8b6#diff-0350ce2e13b28d5d61252b7a8f50a059" > SolrUpgradePre6xStatistics.java< / a >
< ul >
< li > You need to download this into the DSpace 6.x source and compile it< / li >
< / ul >
< / li >
< / ul >
< a href = 'https://alanorth.github.io/cgspace-notes/2020-03/' > Read more →< / a >
< / article >
2020-02-02 16:15:48 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2020-02/" > February, 2020< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2020-02-02T11:56:30+02:00" > Sun Feb 02, 2020< / time > by Alan Orth in
2020-02-02 16:15:48 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
< / p >
< / header >
< h2 id = "2020-02-02" > 2020-02-02< / h2 >
< ul >
< li > Continue working on porting CGSpace’ s DSpace 5 code to DSpace 6.3 that I started yesterday
< ul >
< li > Sign up for an account with MaxMind so I can get the GeoLite2-City.mmdb database< / li >
< li > I still need to wire up the API credentials and cron job into the Ansible infrastructure playbooks< / li >
< li > Fix some minor issues in the config and XMLUI themes, like removing Atmire stuff< / li >
< li > The code finally builds and runs with a fresh install< / li >
< / ul >
< / li >
< / ul >
< a href = 'https://alanorth.github.io/cgspace-notes/2020-02/' > Read more →< / a >
< / article >
2020-01-14 19:40:41 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2020-01/" > January, 2020< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2020-01-06T10:48:30+02:00" > Mon Jan 06, 2020< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2020-01-14 19:40:41 +01:00
< / p >
< / header >
< h2 id = "2020-01-06" > 2020-01-06< / h2 >
< ul >
< li > Open < a href = "https://tracker.atmire.com/tickets-cgiar-ilri/view-ticket?id=706" > a ticket< / a > with Atmire to request a quote for the upgrade to DSpace 6< / li >
< li > Last week Altmetric responded about the < a href = "https://hdl.handle.net/10568/97087" > item< / a > that had a lower score than than its DOI
< ul >
< li > The score is now linked to the DOI< / li >
< li > Another < a href = "https://handle.hdl.net/10568/91278" > item< / a > that had the same problem in 2019 has now also linked to the score for its DOI< / li >
< li > Another < a href = "https://hdl.handle.net/10568/81236" > item< / a > that had the same problem in 2019 has also been fixed< / li >
< / ul >
< / li >
< / ul >
< h2 id = "2020-01-07" > 2020-01-07< / h2 >
< ul >
< li > Peter Ballantyne highlighted one more WLE < a href = "https://hdl.handle.net/10568/101286" > item< / a > that is missing the Altmetric score that its DOI has
< ul >
< li > The DOI has a score of 259, but the Handle has no score at all< / li >
< li > I < a href = "https://twitter.com/mralanorth/status/1214471427157626881" > tweeted< / a > the CGSpace repository link< / li >
< / ul >
< / li >
< / ul >
< a href = 'https://alanorth.github.io/cgspace-notes/2020-01/' > Read more →< / a >
< / article >
2019-12-01 10:29:49 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2019-12/" > December, 2019< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2019-12-01T11:22:30+02:00" > Sun Dec 01, 2019< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2019-12-01 10:29:49 +01:00
< / p >
< / header >
2019-12-17 13:49:24 +01:00
< h2 id = "2019-12-01" > 2019-12-01< / h2 >
2019-12-01 10:29:49 +01:00
< ul >
< li > Upgrade CGSpace (linode18) to Ubuntu 18.04:
< ul >
< li > Check any packages that have residual configs and purge them:< / li >
< li > <!-- raw HTML omitted --> # dpkg -l | grep -E ‘ ^rc’ | awk ‘ {print $2}’ | xargs dpkg -P<!-- raw HTML omitted --> < / li >
< li > Make sure all packages are up to date and the package manager is up to date, then reboot:< / li >
< / ul >
< / li >
< / ul >
< pre > < code > # apt update & & apt full-upgrade
# apt-get autoremove & & apt-get autoclean
# dpkg -C
# reboot
< / code > < / pre >
< a href = 'https://alanorth.github.io/cgspace-notes/2019-12/' > Read more →< / a >
< / article >
2019-11-04 15:41:19 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2019-11/" > November, 2019< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2019-11-04T12:20:30+02:00" > Mon Nov 04, 2019< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2019-11-04 15:41:19 +01:00
< / p >
< / header >
2019-12-17 13:49:24 +01:00
< h2 id = "2019-11-04" > 2019-11-04< / h2 >
2019-11-04 15:41:19 +01:00
< ul >
2019-11-28 16:30:45 +01:00
< li > Peter noticed that there were 5.2 million hits on CGSpace in 2019-10 according to the Atmire usage statistics
2019-11-04 15:41:19 +01:00
< ul >
2019-11-28 16:30:45 +01:00
< li > I looked in the nginx logs and see 4.6 million in the access logs, and 1.2 million in the API logs:< / li >
< / ul >
< / li >
< / ul >
2019-11-04 15:41:19 +01:00
< pre > < code > # zcat --force /var/log/nginx/*access.log.*.gz | grep -cE " [0-9]{1,2}/Oct/2019"
4671942
# zcat --force /var/log/nginx/{rest,oai,statistics}.log.*.gz | grep -cE " [0-9]{1,2}/Oct/2019"
1277694
2019-11-28 16:30:45 +01:00
< / code > < / pre > < ul >
< li > So 4.6 million from XMLUI and another 1.2 million from API requests< / li >
2020-01-27 15:20:44 +01:00
< li > Let’ s see how many of the REST API requests were for bitstreams (because they are counted in Solr stats):< / li >
2019-11-28 16:30:45 +01:00
< / ul >
2019-11-04 15:41:19 +01:00
< pre > < code > # zcat --force /var/log/nginx/rest.log.*.gz | grep -c -E " [0-9]{1,2}/Oct/2019"
1183456
# zcat --force /var/log/nginx/rest.log.*.gz | grep -E " [0-9]{1,2}/Oct/2019" | grep -c -E " /rest/bitstreams"
106781
2019-11-28 16:30:45 +01:00
< / code > < / pre >
2019-11-04 15:41:19 +01:00
< a href = 'https://alanorth.github.io/cgspace-notes/2019-11/' > Read more →< / a >
< / article >
2019-10-28 12:43:25 +01:00
< article class = "blog-post" >
< header >
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/cgspace-cgcorev2-migration/" > CGSpace CG Core v2 Migration< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2019-10-28T13:27:35+02:00" > Mon Oct 28, 2019< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2019-10-28 12:43:25 +01:00
2020-01-28 11:01:42 +01:00
< span class = "fas fa-tag" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/tags/migration/" rel = "tag" > Migration< / a >
2019-10-28 12:43:25 +01:00
< / p >
< / header >
< p > Possible changes to CGSpace metadata fields to align more with DC, QDC, and DCTERMS as well as CG Core v2.< / p >
< p > With reference to < a href = "https://agriculturalsemantics.github.io/cg-core/cgcore.html" > CG Core v2 draft standard< / a > by Marie-Angélique as well as < a href = "http://www.dublincore.org/specifications/dublin-core/dcmi-terms/" > DCMI DCTERMS< / a > .< / p >
< a href = 'https://alanorth.github.io/cgspace-notes/cgspace-cgcorev2-migration/' > Read more →< / a >
< / article >
2019-10-01 16:31:40 +02:00
< article class = "blog-post" >
< header >
2019-10-11 10:19:42 +02:00
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2019-10/" > October, 2019< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2019-10-01T13:20:51+03:00" > Tue Oct 01, 2019< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2019-10-01 16:31:40 +02:00
< / p >
< / header >
2020-01-27 15:20:44 +01:00
2019-10-01 Udana from IWMI asked me for a CSV export of their community on CGSpace I exported it, but a quick run through the csv-metadata-quality tool shows that there are some low-hanging fruits we can fix before I send him the data I will limit the scope to the titles, regions, subregions, and river basins for now to manually fix some non-breaking spaces (U+00A0) there that would otherwise be removed by the csv-metadata-quality script’ s “ unneccesary Unicode” fix: $ csvcut -c 'id,dc.
2019-10-01 16:31:40 +02:00
< a href = 'https://alanorth.github.io/cgspace-notes/2019-10/' > Read more →< / a >
< / article >
2019-09-01 09:41:30 +02:00
< article class = "blog-post" >
< header >
2019-10-11 10:19:42 +02:00
< h2 class = "blog-post-title" dir = "auto" > < a href = "https://alanorth.github.io/cgspace-notes/2019-09/" > September, 2019< / a > < / h2 >
2020-04-02 09:55:42 +02:00
< p class = "blog-post-meta" > < time datetime = "2019-09-01T10:17:51+03:00" > Sun Sep 01, 2019< / time > by Alan Orth in
2020-01-28 11:01:42 +01:00
< span class = "fas fa-folder" aria-hidden = "true" > < / span > < a href = "/cgspace-notes/categories/notes/" rel = "category tag" > Notes< / a >
2019-09-01 09:41:30 +02:00
< / p >
< / header >
2019-12-17 13:49:24 +01:00
< h2 id = "2019-09-01" > 2019-09-01< / h2 >
2019-09-01 09:41:30 +02:00
< ul >
< li > Linode emailed to say that CGSpace (linode18) had a high rate of outbound traffic for several hours this morning< / li >
2019-11-28 16:30:45 +01:00
< li > Here are the top ten IPs in the nginx XMLUI and REST/OAI logs this morning:< / li >
< / ul >
2019-09-01 09:41:30 +02:00
< pre > < code > # zcat --force /var/log/nginx/access.log /var/log/nginx/access.log.1 | grep -E " 01/Sep/2019:0" | awk '{print $1}' | sort | uniq -c | sort -n | tail -n 10
2019-11-28 16:30:45 +01:00
440 17.58.101.255
441 157.55.39.101
485 207.46.13.43
728 169.60.128.125
730 207.46.13.108
758 157.55.39.9
808 66.160.140.179
814 207.46.13.212
2472 163.172.71.23
6092 3.94.211.189
2019-09-01 09:41:30 +02:00
# zcat --force /var/log/nginx/rest.log /var/log/nginx/rest.log.1 /var/log/nginx/oai.log /var/log/nginx/oai.log.1 | grep -E " 01/Sep/2019:0" | awk '{print $1}' | sort | uniq -c | sort -n | tail -n 10
2019-11-28 16:30:45 +01:00
33 2a01:7e00::f03c:91ff:fe16:fcb
57 3.83.192.124
57 3.87.77.25
57 54.82.1.8
822 2a01:9cc0:47:1:1a:4:0:2
1223 45.5.184.72
1633 172.104.229.92
5112 205.186.128.185
7249 2a01:7e00::f03c:91ff:fe18:7396
9124 45.5.186.2
< / code > < / pre >
2019-09-01 09:41:30 +02:00
< a href = 'https://alanorth.github.io/cgspace-notes/2019-09/' > Read more →< / a >
< / article >
2018-02-11 17:28:23 +01:00
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< li > < a href = "/cgspace-notes/2020-05/" > May, 2020< / a > < / li >
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2018-02-11 17:28:23 +01:00
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< li > < a href = "https://cgspace.cgiar.org" > CGSpace< / a > < / li >
< li > < a href = "https://dspacetest.cgiar.org" > DSpace Test< / a > < / li >
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