SF Plecoptera (id 1065): test report

yroskov commented 3 years ago

Data of 2021-08-20 taken from local machine http://10.194.234.20:3000/ File Plecoptera_coldp_otu_id_86499_2021-09-09T14 46 32-05 00 imported.

(see DEV report https://github.com/CatalogueOfLife/testing/issues/78)

[x] Imported: 4282 spp (vs 3691 + 247† in ac19)
[ ] Metadata: not updated
[x] Classification: OK
[x] Sector: order Plecoptera re-established (option "replace")

yroskov commented 3 years ago

[x] ISSUES assessed
Multi Word Epithet, 1 synonym Capnioneura s balcanica [sic] Baumann & Kaćanski, 1975 = blocked
Uppercase Epithet, Indetermined, 32 32 synonyms with "s" between genus and species epithet (e.g. Leuctra s klapaleki Kempny, 1898; Nemoura s affinis Stephens, 1836; Nemoura s caucasica Balinsky, 1950); all recognized as subspecies with epithet "s" by the checklistbank = blocked
Inconsistent Name, 116 116 accepted names with portion supersp recognized as "species aggregate" by the checklistbank (e.g. Allocapnia supersp forbesi Frison, 1929; Allocapnia supersp pygmaea (Burmeister, 1839)) = no action

yroskov commented 3 years ago

[x] TASKS

Resolved 2021-09-15

~~Perhaps all cases of synonymy for superspecies and some cases of autonymic subspecies remain unresolved.~~

Resolved 2021-09-20

yroskov commented 3 years ago

Synced 2021-09-15.

yroskov commented 3 years ago

[x] 116 superspecies/species aggregate = BLOCKED due to broken parent-child relationships with species https://data.catalogueoflife.org/catalogue/3/dataset/1065/workbench?facet=rank&facet=issue&facet=status&facet=nomStatus&facet=nameType&facet=field&facet=authorship&facet=authorshipYear&facet=extinct&facet=environment&facet=origin&limit=50&offset=0&q=supersp

Superspecies/species aggregate were blocked via Workbench: all names with portion "supersp" were blocked. Alternative way: go to Assembly, right click on sector label, activate option EditSector, select all ranks which need to be kept (huge list) and leave unwanted ranks, sync.

Synced 2021-09-20

yroskov commented 2 years ago

New versions exported/imported SF->TW 2022-09-05 = release date; imported TW->CLB 2022-09-14; re-imported with fixed extinct flag 2022-10-20 Data taken from localhost:3000.

[x] New importer used. Distribution added. "Looped synonymy" resolved.
[x] Imported: 4344 spp (vs 4282 spp in Aug 2021)
[x] Metadata: version & date updated
[x] Classification: OK; 3 paleo families & 6 paleo genera have no placement in suborders
[x] Sector: order Plecoptera

yroskov commented 2 years ago

ISSUES assessed 2022-11-02

Multi Word Epithet, 32: names with portion "[sic]", for example, synonym Nemoura latior [sic] Navás, 1914 = no action.
Inconsistent Name, 118: names with portion "supersp". All misinterpreted in CLB (flagged as "species aggregate" without children; portion "supersp" parsed as specificEpithet) = blocked.

yroskov commented 2 years ago

TASKS

Broken decisions, 185; re-match all = 25 remain broken; deleted all

Resolved 2022-11-02

Synced 2022-11-02

yroskov commented 9 months ago

SF Plecoptera ver. 0.37.1 / 2024-01-09; imported 2024-01-09

[x] Imported: 4476 spp (vs 4344 spp in Sep 2022)
[x] Metadata: changed 0.37.1 / 2024-01-09 -> Jan 2024 / 2024-01-09
[x] Classification: OK
[x] Sector: broken (missing subject) = FIXED
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[ ] Species URLs: no
[ ] DOI: no
[x] (!) Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left)

ISSUES assessed 2024-01-18

@gdower, could you pls have a look on this issue in SF Plecoptera import:

Name Id Invalid: 6 species names (chained synonyms?) https://www.checklistbank.org/catalogue/3/dataset/1065/verbatim?issue=name%20id%20invalid
Not Interpreted: 51 genus & species names https://www.checklistbank.org/catalogue/3/dataset/1065/verbatim?issue=not%20interpreted
Inconsistent Name, 168: superspecies & subspecies without species epithet https://www.checklistbank.org/catalogue/3/dataset/1065/workbench?facet=rank&facet=issue&facet=status&facet=nomStatus&facet=nameType&facet=field&facet=authorship&facet=authorshipYear&facet=extinct&facet=environment&facet=origin&issue=inconsistent%20name&limit=100&offset=100&reverse=false = No action (superspecies excluded from sync)

TASKS

Broken decisions, 427: deleted
two entries for Cultus decisus decisus (Walker, 1852) https://www.checklistbank.org/catalogue/3/dataset/1065/duplicates?authorshipDifferent=false&catalogueKey=3&category=trinomial&limit=50&minSize=2&mode=STRICT&offset=0&status=accepted&withDecision=false = DELETED (one without distribution)

Resolved 2024-01-18:

Synced 2024-01-18

yroskov commented 8 months ago

SF Plecoptera ver. 0.38.1 / 2024-02-06; imported 2024-02-07

[x] Imported: 4477 spp (vs 4476 spp)
[x] Metadata: changed 0.38.1 / 2024-02-06 -> Feb 2024 / 2024-02-06
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left)
[x] Names with portion [GENUS NOT SPECIFIED]: 4 blocked
[ ] Species URLs: no
[ ] DOI: no

TASKS

Resolved 2024-02-20:

Synced 2024-02-20

yroskov commented 7 months ago

SF Plecoptera ver. 0.39.0 / 2024-03-08; imported 2024-03-09

[x] Imported: 4489 spp (vs 4477 spp)
[x] Metadata: changed 0.39.0 / 2024-03-08 -> Mar 2024 / 2024-03-08
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

ISSUES assessed 2024-03-20

TASKS

Broken decisions, 4 = deleted

Resolved 2024-03-20:

Synced 2024-03-20

yroskov commented 6 months ago

SF Plecoptera ver. 0.40.3 / 2024-04-18; imported 2024-04-19 from Geoff's laptop

[x] Imported: 4489 spp (vs 4489 spp)
[x] Metadata: changed 0.40.3 / 2024-04-18 -> Apr 2024 / 2024-04-18
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

TASKS no issues

Synced 2024-04-22

yroskov commented 6 months ago

SF Plecoptera ver. 0.41.0 / 2024-05-06; imported 2024-05-06 from Geoff's laptop

[x] Imported: 4492 spp (vs 4489 spp)
[x] Metadata: changed 0.41.0 / 2024-05-06 -> May 2024 / 2024-05-06
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

TASKS

Broken decisions, 1 = blocked

Synced 2024-05-10

yroskov commented 5 months ago

SF Plecoptera ver. 0.41.1 / 2024-06-03; imported 2024-06-03 from Geoff's laptop

[x] Imported: 4508 spp (vs 4492 spp)
[x] Metadata: changed 0.41.1 / 2024-06-03 -> Jun 2024 / 2024-06-03
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

ISSUES assessed 2024-06-05

TASKS no issues

Synced 2024-06-05

yroskov commented 3 months ago

SF Plecoptera ver. 0.42.0 / 2024-07-05; imported 2024-07-05 from Geoff's laptop

[x] Imported: 4512 spp (vs 4508 spp)
[x] Metadata: version corrected 0.42.0 / 2024-07-05 -> Jul 2024 / 2024-07-05
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

TASKS no new issues

Synced 2024-07-17

yroskov commented 2 months ago

SF Plecoptera ver. 0.43.1 / 2024-08-06; imported 2024-08-06 from Geoff's laptop

[x] Imported: 4531 spp (vs 4512 spp)
[x] Metadata: version corrected 0.43.1 / 2024-08-06 -> Aug 2024 / 2024-08-06
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

ISSUES assessed 2024-08-12

TASKS

Broken decisions, 29 = deleted
Outdated decisions, 13 = no action

Resolved 2024-08-12:

Synced 2024-08-12

yroskov commented 1 month ago

SF Plecoptera ver. 0.43.2 / 2024-09-06; imported from Geoff's laptop

[x] Imported: 4533 spp (vs 4531 spp)
[x] Metadata: version corrected 0.43.2 / 2024-09-06 -> Sep 2024 / 2024-09-06
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[ ] Species URLs: no
[ ] DOI: no

Metrics

TASKS

Broken decisions, 27 = deleted
Outdated decisions, 19 = no action

Resolved 2024-09-16:

Synced 2024-09-16

yroskov commented 1 month ago

[x] there are 2 entries for Acroneuria Pictet, 1841 as an identical accepted genus. One entry has no species (blocked in CoL of Sep). - for attention of @hhopkins77 (just in case) (https://www.checklistbank.org/dataset/1065/duplicates?category=uninomial&limit=50&minSize=2&mode=STRICT&offset=0&rank=genus&status=accepted)

redewalt commented 1 month ago

Thanks

R. Edward DeWalt University of Illinois Illinois Natural History Survey 1816 S Oak St. Champaign, Illinois 61820 @.*** 217-649-7414

From: yroskov @.> Sent: Monday, September 16, 2024 10:57 AM To: CatalogueOfLife/testing @.> Cc: Subscribed @.***> Subject: Re: [CatalogueOfLife/testing] SF Plecoptera (id 1065): test report (#158)

there are 2 entries for Acroneuria Pictet, 1841 as an identical accepted genus. One entry has no species (blocked in CoL of Sep). - for attention of @hhopkins77https://urldefense.com/v3/__https://github.com/hhopkins77__;!!DZ3fjg!8VR7hg7gZwM7b3jYU7MQnv5Jip-7JPdYInXLfYRuSf8OPgTnrgNWeqe_E7SqBrvnbBjoIamN4vyB7Rla62qCeKAVCA$ (just in case) (https://www.checklistbank.org/dataset/1065/duplicates?category=uninomial&limit=50&minSize=2&mode=STRICT&offset=0&rank=genus&status=accepted https://urldefense.com/v3/__https://www.checklistbank.org/dataset/1065/duplicates?category=uninomial&limit=50&minSize=2&mode=STRICT&offset=0&rank=genus&status=accepted__;!!DZ3fjg!8VR7hg7gZwM7b3jYU7MQnv5Jip-7JPdYInXLfYRuSf8OPgTnrgNWeqe_E7SqBrvnbBjoIamN4vyB7Rla62qgDxLIyQ$)

— Reply to this email directly, view it on GitHubhttps://urldefense.com/v3/__https://github.com/CatalogueOfLife/testing/issues/158*issuecomment-2353313419__;Iw!!DZ3fjg!8VR7hg7gZwM7b3jYU7MQnv5Jip-7JPdYInXLfYRuSf8OPgTnrgNWeqe_E7SqBrvnbBjoIamN4vyB7Rla62peFglbYA$, or unsubscribehttps://urldefense.com/v3/__https://github.com/notifications/unsubscribe-auth/AHLQ2GSE5QLP7LLANWKLGR3ZW35X3AVCNFSM5ECYJNAKU5DIOJSWCZC7NNSXTN2JONZXKZKDN5WW2ZLOOQ5TEMZVGMZTCMZUGE4Q__;!!DZ3fjg!8VR7hg7gZwM7b3jYU7MQnv5Jip-7JPdYInXLfYRuSf8OPgTnrgNWeqe_E7SqBrvnbBjoIamN4vyB7Rla62rp_2ozJw$. You are receiving this because you are subscribed to this thread.Message ID: @.***>

hhopkins77 commented 1 month ago

I've checked on this. There is only one entry in TaxonWorks. I'll bring it to this week's meeting.

yroskov commented 1 month ago

There is only one entry in TaxonWorks.

@gdower, could this be related to OTU(s)?

hhopkins77 commented 1 month ago

There was a "ghost" OTU on the name that I removed. I don't know if that will solve the issue (?)

yroskov commented 1 month ago

Thank you @hhopkins77! This should resolve the issue. (woops, sorry! I misplaced here another comment related to Psocodea. Corrected now)

hhopkins77 commented 1 month ago

I have fixed the Psocodea issue in TW.

yroskov commented 1 month ago

Thank you!

yroskov commented 3 weeks ago

SF Plecoptera ver. Oct 2024 / 2024-10-08; imported 2024-10-09 from Geoff's laptop

[x] Imported: 4545 spp (vs 4533 spp)
[x] Metadata: OK
[x] Classification: OK
[x] Sector: OK
[x] Flag "Extinct": OK
[x] Distribution: OK
[x] Environment: OK
[x] Exclude ranks Species Aggregate (= supersp) & Other from the sync via Edit Sector tool on right click in CoL sector (left) = OK
[x] Names with portion [GENUS NOT SPECIFIED]: 0
[x] Species URLs: OK
[ ] DOI: no

Metrics

ISSUES assessed 2024-10-15

TASKS = no new issues

Broken decisions, 1 = deleted
Outdated decisions, 8 = no action

Synced 2024-10-15

yroskov commented 3 weeks ago

Metrics - Timeline 2024-10-15: https://www.checklistbank.org/dataset/1065/import-timeline

CatalogueOfLife / testing

SF Plecoptera (id 1065): test report #158