Skip to content

Commit

Permalink
Update use-case.md
Browse files Browse the repository at this point in the history
  • Loading branch information
MathewBiddle authored Sep 13, 2024
1 parent 3a24ec6 commit 0b75bae
Showing 1 changed file with 21 additions and 7 deletions.
28 changes: 21 additions & 7 deletions _docs/use-case.md
Original file line number Diff line number Diff line change
Expand Up @@ -89,22 +89,36 @@ click I "htpps://data.ioos.us" "IOOS Catalog" _blank
click FC "https://data.noaa.gov/onestop/collections/details/55309a04-8383-42ff-b2fe-ab3497431756" "OneStop" _blank
```

**Order of activities:**
#### Access Points

Below is a table of the various places to discover these data and the process by which these data were standardized to Darwin Core.

Source | URL
-------|-----
NERACOOS ERDDAP | <http://www.neracoos.org/erddap/tabledap/WBTS_CFIN_2004_2017.html>
Data standardization process | <https://github.com/ioos/bio_data_guide/issues/102>
NCEI | <https://www.ncei.noaa.gov/access/metadata/landing-page/bin/iso?id=gov.noaa.nodc:0250940>
OBIS-USA IPT | <https://www1.usgs.gov/obis-usa/ipt/resource?r=gom_wbts_mesozooplankton>
OBIS | <https://obis.org/dataset/5ef55cd8-05a1-4569-8e17-ceb224e40f59>
GBIF | <https://www.gbif.org/dataset/29651377-23c8-4f45-b439-693a1a23cee1>
IOOS Catalog | <https://data.ioos.us/dataset/gulf-of-maine-wbts-calanus-abundance-observations>
NOAA OneStop | <https://data.noaa.gov/onestop/collections/details/55309a04-8383-42ff-b2fe-ab3497431756>

### Order of activities:**
1. Serve data and metadata on RA ERDDAP
2. Align ERDDAP data to DarwinCore
3. Share to OBIS-USA
4. OBIS-USA shares via IPT to OBIS and GBIF
5.

### Serving raw data via IOOS RA ERDDAP
#### Serving raw data via IOOS RA ERDDAP
Raw Gulf of Maine WBTS Calanus Abundance Observations available in ERDDAP: <http://www.neracoos.org/erddap/tabledap/WBTS_CFIN_2004_2017.html>

### Aligning raw data to Darwin Core
#### Aligning raw data to Darwin Core
This dataset was processed by Dylan Pugh during the 2022 Marine BioData Mobilization Workshop in the notebook linked below:

**MBTS MBON process:** <https://github.com/ioos/bio_data_guide/tree/main/datasets/WBTS_MBON>

### Sending data to OBIS-USA
#### Sending data to OBIS-USA
Data were submitted to OBIS-USA by contributing the Darwin Core aligned files (and code) to the [ioos/bio-data-guide](https://github.com/ioos/bio_data_guide) repository. See this [GitHub Issue](https://github.com/ioos/bio_data_guide/issues/102) and subsequent Pull Requests [here](https://github.com/ioos/bio_data_guide/pull/101) and [here](https://github.com/ioos/bio_data_guide/pull/108) for more information on the conversion process.

The processed files were uploaded to the repository and OBIS-USA downloaded them for loading in the OBIS-USA IPT.
Expand All @@ -115,7 +129,7 @@ Data were shared to OBIS at: <https://obis.org/dataset/5ef55cd8-05a1-4569-8e17-c

Data were shared to GBIF at: <https://www.gbif.org/dataset/29651377-23c8-4f45-b439-693a1a23cee1>

### Sending data to NCEI
#### Sending data to NCEI
1. Use [ERDDAP's `ArchiveADataset.sh`](https://coastwatch.pfeg.noaa.gov/erddap/download/setup.html#ArchiveADataset) for the dataset <http://www.neracoos.org/erddap/tabledap/WBTS_CFIN_2004_2017.html> to create an archival package for submission to NCEI as a one-off via [Send2NCEI](https://www.ncei.noaa.gov/archive/send2ncei/).
1. To run as a one liner with a [Docker deployed ERDDAP](https://ioos.github.io/erddap-gold-standard/index.html), use this
```
Expand All @@ -140,7 +154,7 @@ Data were shared to GBIF at: <https://www.gbif.org/dataset/29651377-23c8-4f45-b4
9. Iterate with NCEI to answer any remaining questions they might have.
10. Once archived and published, NCEI will provide an accession number and url to the dataset landing page.
### Loading data into MBON Portal
#### Loading data into MBON Portal
*Describe the process for loading data into MBON portal, including lessons learned. Include link to MBON portal layer.*
### Overall lessons learned
Expand Down

0 comments on commit 0b75bae

Please sign in to comment.