UC-SCFS:Bird and UC-SCFS:Mamm

[dustymc]

I just noticed these (they broke some scripts...), it doesn't look like there are any specimens yet (but I don't have access so ??). I think Arctos can accommodate the - in guid_prefix, but that's almost certainly going to find a way to break random things "in the wild" (eg, web pages that use "fancy punctuation").

If those haven't been used in GUIDs yet, I would encourage reconsidering. I'll update the recommendations at http://handbook.arctosdb.org/documentation/catalog.html#guid-prefix

Here's a probably-partial list of Unicode characters that sort of look like dashes.

https://www.fileformat.info/info/unicode/category/Pd/list.htm

@ccicero @mkoo

[mkoo]

Since we have not yet bulkloaded the data, perhaps we should simply remove the hyphen. It may already be listed at GRBIO with the hyphen so an update there may be needed.

On Thu, Jul 11, 2019 at 10:36 AM dustymc notifications@github.com wrote:

I just noticed these (they broke some scripts...), it doesn't look like there are any specimens yet (but I don't have access so ??). I think Arctos can accommodate the - in guid_prefix, but that's almost certainly going to find a way to break random things "in the wild" (eg, web pages that use "fancy punctuation").

If those haven't been used in GUIDs yet, I would encourage reconsidering. I'll update the recommendations at http://handbook.arctosdb.org/documentation/catalog.html#guid-prefix

Here's a probably-partial list of Unicode characters that sort of look like dashes.

https://www.fileformat.info/info/unicode/category/Pd/list.htm

@ccicero https://github.com/ccicero @mkoo https://github.com/mkoo

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[ccicero]

Bulkloading these data are still high on my list, but since we haven't done that yet, let's modify and also update at GRBIO as well. Should we change to just SCFS:Bird and SCFS:Mamm (without the UC)? We can indicate that they are UC field stations in the description.

I think we wanted to include the UC because we will have other UC field stations, but I think it's ok to drop that. @mkoo - your thoughts?

[mkoo]

I remember why you wanted the UC prefix. It's still a good reason to have (just without the hyphen) but there's argument to drop it as future-proofing the collection, say in the case, they keep the field station but no longer are part of UCNRS. Looking at the other collections and field stations (KNWR) I'm ok to drop UC and update GRBIO to match. Let me check what their paper tags say.....

On Fri, Jul 12, 2019 at 11:30 AM Carla Cicero notifications@github.com wrote:

Bulkloading these data are still high on my list, but since we haven't done that yet, let's modify and also update at GRBIO as well. Should we change to just SCFS:Bird and SCFS:Mamm (without the UC)? We can indicate that they are UC field stations in the description.

I think we wanted to include the UC because we will have other UC field stations, but I think it's ok to drop that. @mkoo https://github.com/mkoo - your thoughts?

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[ccicero]

The bird tag has 'University of California Sagehen Creek Field Station' - I think dropping the UC is ok.

[mkoo]

Let's do it then!

On Fri, Jul 12, 2019 at 12:00 PM Carla Cicero notifications@github.com wrote:

The bird tag has 'University of California Sagehen Creek Field Station' - I think dropping the UC is ok.

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[ccicero]

@dustymc @lkvoong @mkoo I'm working on getting these data ready for bulkloading (finally!) and see that Arctos still has UC-SCFS even though we agreed to drop the "UC-" so it's just "SCFS" which matches GRBIO.

Dusty or Lam, can one of you make that change in Arctos? Right now there are no data, but there will hopefully be some soon. Thanks!

[ekrimmel]

@ccicero You need to check in with SCFS (Faerthen Felix, @faerthen, ffelix@berkeley.edu) before you move forward with this. This migration process for their data has been going on for at least three years and they got tired of waiting around so have migrated their data into a Symbiota portal instead.

[ccicero]

Thanks Erica. I wrote to Faerthen yesterday with some questions about the data. She didn't mention anything about that. I know it's taken a long time, I was trying to match with existing Arctos localities (and clean those up) and agents and got hung up, then side tracked. @mkoo and I will work it out with Faerthen.

[faerthen]

Hi Carla,

I did mention previously and in this latest chain that our bird collection data is in CSVColl.org (as is our mammal collection). Erica was able to provide a back up of the mammal pelt and label images, so they are online--just the bird images were lost.

Our herbarium records have also been recently ingested into CCH2.org; Erica and I roadtripped down with all our vouchers and worked with Jenn Yost's CAP-TCN group at Cal Poly to reimage the entire collection.

Sorry if I wasn't clear. Let me know if you need anything else from me. I do think that making a list of full names of everyone in the collections is a good idea and I can work on that.

One thing we still really need from you is an export of all the Sagehen insect records that were imaged by Misha Leong and crew (in 2014 or so?). Because of the way they were ingested, it's impossible to recognize them as Sagehen's collection without knowing the names of all the crew that worked on the project and I don't have that information.

Thanks for your help with that...

FF

On Fri, Dec 27, 2019, 1:21 PM Carla Cicero notifications@github.com wrote:

Thanks Erica. I wrote to Faerthen yesterday with some questions about the data. She didn't mention anything about that. I know it's taken a long time, I was trying to match with existing Arctos localities (and clean those up) and agents and got hung up, then side tracked. @mkoo https://github.com/mkoo and I will work it out with Faerthen.

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[ccicero]

Hi Faerthen - Sorry, I don't remember seeing anything about this. So to be clear then, we should remove UC-SCFS from Arctos, correct?

Re: the insect records, I don't have access to any of those data. You would need to contact Kip Will about that (or Pete Oboyski?)

Thanks, Carla

[faerthen]

Okay, thanks Carla. If for some reason you want to populate Arctos with the Sagehen records that are in CSVColl, I don't have any issue with that. But otherwise, yes, remove UC-SCFS from Arctos.

Happy New Year!

FF

On Tue, Dec 31, 2019 at 12:36 PM Carla Cicero notifications@github.com wrote:

Hi Faerthen - Sorry, I don't remember seeing anything about this. So to be clear then, we should remove UC-SCFS from Arctos, correct?

Re: the insect records, I don't have access to any of those data. You would need to contact Kip Will about that (or Pete Oboyski?)

Thanks, Carla

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-- Faerthen Felix, Asst. Manager UC Berkeley Sagehen Creek Field Station P.O.Box 939 Truckee, CA 96160 (530) 587-4830 ffelix@berkeley.edu http://sagehen.berkeley.edu

[ccicero]

Thanks Faerthen. It would be nice to have the records in Arctos because one could then see all agent activity at Sagehen (including specimens both at MVZ and SCFS). My only concern is that we don't want the data published twice to VertNet, GBIF, iDigBio, etc. But we could set it up so that that doesn't happen. Let me discuss with Michelle next week.

Assuming we do that, can you still respond to my questions from the separate email, which I'm copying here:

1) There are no images for specimens 1-69. Was there a reason for that? It's nice to have the images to check the data. Any chance of getting photos for those?

-- Understood that those are lost.

2) SCFS 19: collector is entered in spreadsheet as "USFW" - should that be US Fish and Wildlife Service? There is also a preparator number entered as 2501 but no preparator name is given. This is a Band-tailed Pigeon. Can you check the tag and tell me the collector/preparator names?

-- Collector is USFWS, but still need a preparator name for # 2501

3) Do you have a list of people who have worked at Sagehen? I was able to cross-reference some of the names to those already in Arctos, but it would be great to have a list to check against for the other names (to see if I can get full or at least first names).

-- Still useful to do.

4) The last entry in the spreadsheet has no number. Collector is given as "Th. White" and preparator is Starker Leopold (# 1765). It's a kestrel. Is this skin in your collection, and if so, can you tell me the SCFS number?

-- "Th" understood to be Marshall White, but no SCFS number in spreadsheet so need to check specimen.

5) SCFS # 64 doesn't list a collector, and since there's no photo I can't check the tag. It's a Downy Woodpecker from Santa Cruz County CA. Can you check and see if a collector is written on the tag?

-- Need to check specimen.

6) SCFS #6 just says 'hawk' but it was entered as Accipiter sp. Can you please confirm that it's an Accipiter and not some other hawk genus (can you ID it)?

-- Need to check specimen.

Thanks!

[faerthen]

Hi Carla,

Sounds good. I'll check those specimens next week and get back to you.

Thanks!

On Tue, Dec 31, 2019 at 2:24 PM Carla Cicero notifications@github.com wrote:

Thanks Faerthen. It would be nice to have the records in Arctos because one could then see all agent activity at Sagehen (including specimens both at MVZ and SCFS). My only concern is that we don't want the data published twice to VertNet, GBIF, iDigBio, etc. But we could set it up so that that doesn't happen. Let me discuss with Michelle next week.

Assuming we do that, can you still respond to my questions from the separate email, which I'm copying here:

1. There are no images for specimens 1-69. Was there a reason for that? It's nice to have the images to check the data. Any chance of getting photos for those?

-- Understood that those are lost.

1. SCFS 19: collector is entered in spreadsheet as "USFW" - should that be US Fish and Wildlife Service? There is also a preparator number entered as 2501 but no preparator name is given. This is a Band-tailed Pigeon. Can you check the tag and tell me the collector/preparator names?

-- Collector is USFWS, but still need a preparator name for # 2501

1. Do you have a list of people who have worked at Sagehen? I was able to cross-reference some of the names to those already in Arctos, but it would be great to have a list to check against for the other names (to see if I can get full or at least first names).

-- Still useful to do.

1. The last entry in the spreadsheet has no number. Collector is given as "Th. White" and preparator is Starker Leopold (# 1765). It's a kestrel. Is this skin in your collection, and if so, can you tell me the SCFS number?

-- "Th" understood to be Marshall White, but no SCFS number in spreadsheet so need to check specimen.

1. SCFS # 64 doesn't list a collector, and since there's no photo I can't check the tag. It's a Downy Woodpecker from Santa Cruz County CA. Can you check and see if a collector is written on the tag?

-- Need to check specimen.

1. SCFS #6 https://github.com/ArctosDB/arctos/issues/6 just says 'hawk' but it was entered as Accipiter sp. Can you please confirm that it's an Accipiter and not some other hawk genus (can you ID it)?

-- Need to check specimen.

Thanks!

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-- Faerthen Felix, Asst. Manager UC Berkeley Sagehen Creek Field Station P.O.Box 939 Truckee, CA 96160 (530) 587-4830 ffelix@berkeley.edu http://sagehen.berkeley.edu

[dustymc]

These collections still exist and are still breaking scripts.

[Jegelewicz]

They should go? https://github.com/ArctosDB/arctos/issues/2159#issuecomment-569987414

@ccicero @mkoo

[dustymc]

Yes, @lkvoong will delete these collections, if they need re-added they can be (with a GP that doesn't break everything).