GLI, Global Lepidoptera Index (id 55434): test report

[yroskov]

LepIndex ver. "2022-04-39 / 2022-04-30" on PROD: https://www.checklistbank.org/dataset/55434/classification

• [x] Imported: 154,619 spp

[yroskov]

Global Lepidoptera Index 1.1.23.336 / 2023-12-02; imported 2023-12-02

• [x] Imported: 160,582 spp (vs 160,300 spp)

• [x] Metadata: OK (long & detailed abstract)

• [x] Sector: OK, order Lepidoptera (in the Sectors report)

• [x] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = Now taxa arranged in the tree in non-alphabetical order. Very inconvenient for editorial data management purposes: for attention of @mdoering & @thomasstjerne

• [ ] All nested sectors are in correct positions in the Tree (check after sync of GLI)

• [x] Names with genus in [...] (>1K; settings 100 names p/p; acc; reverse) = NO SUCH CASES ANYMORE DUE TO CHANGES IN CLB BEHAVIOR

• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): 2 new

TASKS

• Broken decisions, 48: deleted

Resolved 2023-12-12:

Synced 2023-12-12

[yroskov]

Global Lepidoptera Index 1.1.24.013 / 2024-01-13; imported 2024-01-13

• [x] Imported: 160,669 spp (vs 160,582 spp)
• [x] Metadata: OK
• [x] Sector: OK, order Lepidoptera (in the Sectors report)
• [ ] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = Now taxa arranged in the tree in non-alphabetical order. Very inconvenient for editorial data management purposes: for attention of @mdoering & @thomasstjerne. 2024-01-17: unable to check due to interface problem (no scroll bar in GLI tree)
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): 0 new

TASKS

• Broken decisions, 7: deleted
• Outdated decisions, 76: deleted

Synced 2024-01-17

[dhobern]

The sequence is as expected, reflecting standard arrangements for species lists. Maybe there should be a toggle in views that allows a user to force alphabetical order if they require it.

[mdoering]

We might need to think about managing the order of names when we sync from sources. What happens if

• we block some names? The ordering is still fine, not a problem
• we use UNION or MERGE to add more names: these extra names will show up at the bottom of the list in alphabetical order
• anything else?

We should at least provide a sector option to remove taxon ordinals during a sync. I'll work on that, no matter what we decide to do in this specific case.

[dhobern]

@mdoering The main other thing I can imagine is what happens if a project replaces a sequenced node with the node for the corresponding taxon in another source dataset. When this happens, does the merged node retain the sequence position it had in the higher classification, or is the sequence index supplied by the lower classification? The former is what I would want to see happening (since the higher classification is asserting the order in which the children, including the merged node, should appear. But I could imagine that this could get altered by the lower classification node's setting.

[mdoering]

It depends on how the sector is setup. If it is an ATTACH sector the root itself is copied, if it is a UNION it is not, only the descendants. Synced taxa from sources bring their own sequence ordinal, they won't inherit sth from the target.

So imagine we had an entire order A from the primary source with ordinals for sorting all its families.

a) If we'd block one of the families (F) and attach that family F from a different source to the order A. In that case family F would not have any ordinal any more and sort last.

b) you could also leave the family, block its children and use a UNION to merge the descendants from the new source into the family. That would retain the sequence, but it requires all children from the primary source to be blocked. Currently these are individual decisions which is a pain.

To better support this case we would could 1) offer an update decision to set a specific ordinal - which might be useful in its own right 2) provide a new block descendants but keep this taxon decision which would allow to use a UNION sector.

Both isn't that hard, so maybe we should implement both options?

[yroskov]

Global Lepidoptera Index ver. 1.1.24.028 / 2024-01-28; imported 2024-01-28

• [x] Imported: 160,836 spp (vs 160,669 spp)
• [x] Metadata: OK
• [x] Sector: OK
• [ ] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = unchecked (see above)
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): 2 new blocked

TASKS

• Broken decisions, 31: deleted
• Outdated decisions, 9: deleted

Resolved 2024-02-02:

Synced 2024-02-02

[dhobern]

@yroskov Large update today - mostly cleaning work in Notodontidae

[yroskov]

Global Lepidoptera Index ver. 1.1.24.035 / 2024-02-04; imported 2024-01-28

• [x] Imported: 160,888 spp (vs 160,836 spp)

TASKS

Resolved 2024-02-05:

Synced 2024-02-05

[yroskov]

Global Lepidoptera Index ver. 1.1.24.040 / 2024-02-09; imported 2024-02-08

Synced 2024-02-21

[yroskov]

Global Lepidoptera Index ver. 1.1.24.040 / 2024-02-09; imported 2024-03-17

Synced 2024-03-18

[yroskov]

Global Lepidoptera Index ver. 1.1.24.106 / 2024-04-15; imported 2024-04-14

• [x] Imported: 161,382 spp (vs 160,836 spp)
• [x] Metadata: OK. Citation: Beccaloni, G., Scoble, M., Kitching, I., Simonsen, T., Robinson, G., Pitkin, B., Hine, A., Lyal, C., Ollerenshaw, J., Wing, P., & Hobern, D. (2024). Global Lepidoptera Index (D. Hobern, Ed.; 1.1.24.106).
• [x] Sector: OK
• [x] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Geometridae in Geometroidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = CHECKED 2024-04-18 Family Geometridae blocked in GLI, and GLI of 1.1.24.077 / 2024-03-17 synced 2024-03-27. = CONFIRMED 2024-04-18
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): all blocked; 1 name added
• [x] Extinct flag: n/a
• [ ] No DOI

Metrics:

ISSUES assessed 2024-04-18 (with minor fixes)

TASKS

• Broken decisions, 35 = deleted
• Outdated decisions, 19 = deleted

Resolved 2024-04-18:

Synced 2024-04-18

[yroskov]

Global Lepidoptera Index ver. 0.41.1 1.1.24.134 / 2024-05-13; imported 2024-05-14

• [x] Imported: 161,511 spp (vs 161,382 spp)
• [x] Metadata: @dhobern, could you please fix the version. Now it says "0.41.1", the version of TaxonWorks software = FIXED 2024-05-14 as 1.1.24.134 / 2024-05-13
• [x] Sector: OK
• [x] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Geometridae in Geometroidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = CHECKED 2024-05-14
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): all blocked; 1 name added
• [x] Extinct flag: n/a
• [ ] No DOI

Metrics:

ISSUES assessed 2024-05-14

• Multi Word Epithet, 624: names with the portion [sic] - @gdower, please correct me, as I remember, your latest exporter excluded portion "sic". Is Donald using the latest version of the exporter script?

TASKS

• Broken decisions, 44 = deleted
• Outdated decisions, 20 = deleted

Resolved 2024-05-14:

Synced 2024-05-14

[dhobern]

Sorry. I want at home so I uploaded a TaxonWorks ZIP without my normal preprocessing. Fixed the version now.

Sent from Outlook for Androidhttps://aka.ms/AAb9ysg

---

From: yroskov @.> Sent: Wednesday, May 15, 2024 1:35:55 AM To: CatalogueOfLife/testing @.> Cc: Donald Hobern @.>; Mention @.> Subject: Re: [CatalogueOfLife/testing] GLI, Global Lepidoptera Index (id 55434): test report (Issue #195)

Global Lepidoptera Index ver. 0.41.1 / 2024-05-13; imported 2024-05-14

• Imported: 161,511 spp (vs 161,382 spp)
• Metadata: @dhobernhttps://github.com/dhobern, could you please fix the version. Now it says "0.41.1", the version of TaxonWorks software
• Sector: OK
• Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Geometridae in Geometroidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = CHECKED 2024-05-14
• All nested sectors are in correct positions in the Tree (check after GLI sync)
• Names with portion [GENUS NOT SPECIFIED] (both acc & syn): all blocked; 1 name added
• Extinct flag: n/a
• No DOI

Metrics:

image.png (view on web)https://github.com/CatalogueOfLife/testing/assets/28574252/4c20977f-b2bf-461f-bed9-fdd957d2c5ae

ISSUES assessed 2024-05-14

image.png (view on web)https://github.com/CatalogueOfLife/testing/assets/28574252/3f6de3ff-86d2-4c99-867c-9f7d06297501

— Reply to this email directly, view it on GitHubhttps://github.com/CatalogueOfLife/testing/issues/195#issuecomment-2110608449, or unsubscribehttps://github.com/notifications/unsubscribe-auth/AGHP4ZWNVCYMHU7VKIYGW4TZCIY6HAVCNFSM5VGFCS62U5DIOJSWCZC7NNSXTN2JONZXKZKDN5WW2ZLOOQ5TEMJRGA3DAOBUGQ4Q. You are receiving this because you were mentioned.Message ID: @.***>

[yroskov]

Thanks!

TASKS 2024-05-15 = no changes

[yroskov]

@dhobern, I am cleaning duplicated taxa across whole CoL. It looks like Rougeotiana pseudonoctua Herbulot, 1983 is present in both GLI & Geometridae checklists.

[dhobern]

Thanks - a good catch, and a multipartite fix. This species was described in a new genus Rougeotiana which unfortunately is a homonym. GLI has all species under the senior homonymous genus. I can remove it. Meanwhile, a replacement name has been published for the genus and missed by the Geometridae authors. I'll notify them and make the change manually for now.

Donald

--

Donald Hobern / @. / +61 420511471 Araba Bioscan Project https://stangeia.hobern.net/araba-bioscan-project/ / Pterophoroidea https://pterophoroidea.hobern.net/ / Alucitoidea https://alucitoidea.hobern.net/ / BOLD Australia https://bold-au.hobern.net/ ORCID: 0000-0001-6492-4016 https://orcid.org/0000-0001-6492-4016 / Blog https://stangeia.hobern.net/ / iNaturalist https://inaturalist.ala.org.au/people/dhobern / Flickr https://www.flickr.com/photos/dhobern// GitHub https://github.com/dhobern / Mastodon @.>

On Thu, 6 Jun 2024 at 02:34, yroskov @.***> wrote:

@dhobern https://github.com/dhobern, I am cleaning duplicated taxa across whole CoL. It looks like Rougeotiana pseudonoctua Herbulot, 1983 is present in both GLI & Geometridae checklists.

— Reply to this email directly, view it on GitHub https://github.com/CatalogueOfLife/testing/issues/195#issuecomment-2150493854, or unsubscribe https://github.com/notifications/unsubscribe-auth/AGHP4ZWZJSK5MQ4ANVL7HZTZF442TAVCNFSM5VGFCS62U5DIOJSWCZC7NNSXTN2JONZXKZKDN5WW2ZLOOQ5TEMJVGA2DSMZYGU2A . You are receiving this because you were mentioned.Message ID: @.***>

[dhobern]

The Geometridae part is now fixed. Downloading a new copy of GLI from TW so I can fix the other part.

[dhobern]

And now the GLI part is also fixed.

[yroskov]

Global Lepidoptera Index ver. 0.41.1 / 2024-06-06; imported 2024-06-06

• [x] Imported: 161,589 spp (vs 161,511 spp)
• [ ] Metadata: @dhobern, could you please fix the version again (my apology). Now it says "0.41.1", the version of TaxonWorks software. I have the same issue with all checklists from TW (i.e. manually adjusting versioning according GSDs decisions in CLB. We all awaiting proper implementation of metadata in TW.
• [x] Sector: OK
• [x] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Geometridae in Geometroidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = CHECKED 2024-06-06
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [x] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): all blocked; 1 name added
• [x] Extinct flag: n/a
• [ ] No DOI

Metrics

ISSUES assessed 2024-06-06

• [ ] Unparsable Authorship, 99. @dhobern, you might be interested to look through this report. Seems, some authors need a capital letters (i.e. ulcs, 1968; leech, 1898; patenka, 1997; etc.) https://www.checklistbank.org/dataset/55434/names?facet=rank&facet=issue&facet=status&facet=nomStatus&facet=nomCode&facet=nameType&facet=field&facet=authorship&facet=authorshipYear&facet=extinct&facet=environment&facet=origin&facet=sectorMode&facet=secondarySourceGroup&facet=sectorDatasetKey&facet=group&issue=unparsable%20authorship&limit=200&offset=0

TASKS no new issues

Synced 2024-06-06

[dhobern]

@yroskov New update

[yroskov]

@dhobern, I'll sync all updated Lep checklists for CoL of July on Thursday, Jul 18th, if you have no objections

[dhobern]

Thanks - that will be great

[yroskov]

Global Lepidoptera Index ver. 1.1.24.199 / 2024-07-17; imported 2024-07-16

• [x] Imported: 161,626 spp (vs 161,589 spp)
• [x] Metadata: OK
• [x] Sector: OK
• [ ] Blocked taxa in the Assembly (superfam Alucitoidea, fam Sesiidae in Cossoidea, fam Hepialidae in Hepialoidea, fam Gelechiidae in Gelechioidea, fam Geometridae in Geometroidea, fam Gracillariidae in Gracillarioidea, superfam Nepticuloidea, fam Papilionidae & fam Pieridae in Papilionoidea, superfam Pterophoroidea, fam Tineidae in Tineoidea, superfam Tortricoidea) = not checked due to non-alphabetical order in the tree
• [ ] All nested sectors are in correct positions in the Tree (check after GLI sync)
• [ ] Names with portion [GENUS NOT SPECIFIED] (both acc & syn): not checked because of https://github.com/CatalogueOfLife/checklistbank/issues/1444
• [x] Extinct flag: n/a
• [ ] No DOI

Metrics

TASKS

• Broken decisions, 3 = deleted
• Outdated decisions, 2 = no action

Resolved 2024-07-18:

Synced 2024-07-18

[dhobern]

@yroskov New updates in GLI

[dhobern]

@yroskov New updates today