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Hi Sherry,
We have not yet run a script to retroactively register doi's for existing files. We plan to do so over the next few days.
Thanks for paying attention!
Regards,
Kevin
A couple notes:
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Phil,
This is what a 4.9 datafile page looks like (image below) after I've generated a DOI via the script. You can see the file DOI down in the metadata (we used the random INDEPENDENT style with a shoulder), but the citation in the blue box suggests citing the dataset and does not include the datafile DOI. So I think Sherry's just looking at the citation block and not seeing a file DOI (I thought file DOIs weren't being generated when I first ran 4.9 - I thought the file DOI would be in the citation box, but it isn't.) Overall, I don't think this part is a bug per se and I think it is probably reasonable to ask people to cite the dataset, but I wonder if the file DOI should also go in the citation text, e.g. "Myers, James. 2018. "testing draft files". Qualitative Data Repository. https://doi.org/10.5072/FK2G6NAI9. QDR Main Collection. DRAFT VERSION; age matrix.pdf (https://doi.org/10.5072/FK2G6NAI9/ZJZMHZ)". If that makes sense, it's probably an easy update but we may need more discussion if others want a direct file citation). I'll add an issue.
You can also see in the image that I've ended up with a DOI for an unpublished/draft datafile. I'll go ahead and add an issue (and probably a quick fix) for that.
-- Jim
Hi Jim, I'm not quite sure what you're saying about citation but I guess I see what you mean about "registerDataFileAll" but I haven't tested it myself: https://github.com/IQSS/dataverse/blob/v4.9/src/main/java/edu/harvard/iq/dataverse/api/Admin.java#L1040Please do go ahead and create multiple GitHub issues if you're so inclined. I'm not sure I follow the storageidentifier issue either. Thanks for the feedback!Phil
On Sat, Jun 23, 2018 at 9:02 AM, Jim Myers <qqm...@hotmail.com> wrote:
A couple notes:In terms of display, having a file DOI doesn't appear to change the Datafile page text that says "This file is part of "Best Practices in Data Collection and Management Workshop". If you use this file, please cite the dataset:" and the citation box that gives the dataset DOI and filename. On QDR's test system, we do see the File Persistent ID show up farther down the page at the top of the metadata tab, but the citation block is the same.W.r.t. the script - we've run the script and it appears to create DOIs for draft files as well as published ones. It just loops through DataFileServiceBean.findAll()'s results. To match the way new publications work, I think this API call should filter out the datafiles with no publication date.(I also see an issue with older datafile entries in our database where there is no storageidentifier (dvobject table) - they don't get a DOI when the script is run. I haven't tracked down how we got these or whether they are real datafiles that show up somewhere or just dead entries, or whether we missed some update step that should have generated a storageidentifier or not, but it looks like findAll() doesn't find them.)-- Jim
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Phil,
This is what a 4.9 datafile page looks like (image below) after I've generated a DOI via the script. You can see the file DOI down in the metadata (we used the random INDEPENDENT style with a shoulder), but the citation in the blue box suggests citing the dataset and does not include the datafile DOI. So I think Sherry's just looking at the citation block and not seeing a file DOI (I thought file DOIs weren't being generated when I first ran 4.9 - I thought the file DOI would be in the citation box, but it isn't.) Overall, I don't think this part is a bug per se and I think it is probably reasonable to ask people to cite the dataset, but I wonder if the file DOI should also go in the citation text, e.g. "Myers, James. 2018. "testing draft files". Qualitative Data Repository. https://doi.org/10.5072/FK2G6NAI9. QDR Main Collection. DRAFT VERSION; age matrix.pdf (https://doi.org/10.5072/FK2G6NAI9/ZJZMHZ)". If that makes sense, it's probably an easy update but we may need more discussion if others want a direct file citation). I'll add an issue.
You can also see in the image that I've ended up with a DOI for an unpublished/draft datafile. I'll go ahead and add an issue (and probably a quick fix) for that.
-- Jim
On Saturday, June 23, 2018 at 12:06:33 PM UTC-4, Philip Durbin wrote:
Hi Jim, I'm not quite sure what you're saying about citation but I guess I see what you mean about "registerDataFileAll" but I haven't tested it myself: https://github.com/IQSS/dataverse/blob/v4.9/src/main/java/edu/harvard/iq/dataverse/api/Admin.java#L1040
Please do go ahead and create multiple GitHub issues if you're so inclined. I'm not sure I follow the storageidentifier issue either. Thanks for the feedback!
Phil
On Sat, Jun 23, 2018 at 9:02 AM, Jim Myers <qqm...@hotmail.com> wrote:
A couple notes:
In terms of display, having a file DOI doesn't appear to change the Datafile page text that says "This file is part of "Best Practices in Data Collection and Management Workshop". If you use this file, please cite the dataset:" and the citation box that gives the dataset DOI and filename. On QDR's test system, we do see the File Persistent ID show up farther down the page at the top of the metadata tab, but the citation block is the same.
W.r.t. the script - we've run the script and it appears to create DOIs for draft files as well as published ones. It just loops through DataFileServiceBean.findAll()'s results. To match the way new publications work, I think this API call should filter out the datafiles with no publication date.
(I also see an issue with older datafile entries in our database where there is no storageidentifier (dvobject table) - they don't get a DOI when the script is run. I haven't tracked down how we got these or whether they are real datafiles that show up somewhere or just dead entries, or whether we missed some update step that should have generated a storageidentifier or not, but it looks like findAll() doesn't find them.)
-- Jim
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I know we went back and forth about what to display for the citation of a data file because it's not straight forward - we don't have yet a well established best practice across repositories, so we are helping define the standard. Looking into it now again put in practice, and reading Sebastian's comments, I think that the clearest and most comprehensive way to show the citations in the file page is doing what Sebastian proposes:
- To cite this specific data file, please use (citation with file DOI)- To cite the whole dataset, please use (citation with dataset DOI)
Merce
----------Mercè Crosas, Ph.D., Chief Data Science and Technology Officer, IQSS, Harvard University
On Mon, Jun 25, 2018 at 12:44 PM, Sebastian Karcher <sebastiank...@u.northwestern.edu> wrote:
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That makes sense to me, as well. First (of hopefully few) questions*:What is the exact format for the file citation?When we first looked at this and in issue #2438, we thought it should be a full citation* for the file, that is use the filename as the title, and unsure what the "author" should be (since the "author" of the file might not be the author of the dataset.) That challenge is what lead to the idea of the current citation but with two PIDs**, and then per the above, we dropped one PID.So what I'm now thinking is that the file citation is the same citation we now show for the file (with the dataset author and title), and just the PID changed.What is everyone's thoughts on that?
On Mon, Jun 25, 2018 at 2:45 PM Mercè Crosas <merce....@gmail.com> wrote:
I know we went back and forth about what to display for the citation of a data file because it's not straight forward - we don't have yet a well established best practice across repositories, so we are helping define the standard. Looking into it now again put in practice, and reading Sebastian's comments, I think that the clearest and most comprehensive way to show the citations in the file page is doing what Sebastian proposes:
- To cite this specific data file, please use (citation with file DOI)- To cite the whole dataset, please use (citation with dataset DOI)
Merce
----------Mercè Crosas, Ph.D., Chief Data Science and Technology Officer, IQSS, Harvard University
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I'm with you on what I was expecting, Gustavo:
So what I'm now thinking is that the file citation is the same citation we now show for the file (with the dataset author and title), and just the PID changed.
On Mon, Jun 25, 2018 at 3:18 PM, Durand, Gustavo <gdu...@iq.harvard.edu> wrote:
That makes sense to me, as well. First (of hopefully few) questions*:What is the exact format for the file citation?When we first looked at this and in issue #2438, we thought it should be a full citation* for the file, that is use the filename as the title, and unsure what the "author" should be (since the "author" of the file might not be the author of the dataset.) That challenge is what lead to the idea of the current citation but with two PIDs**, and then per the above, we dropped one PID.So what I'm now thinking is that the file citation is the same citation we now show for the file (with the dataset author and title), and just the PID changed.What is everyone's thoughts on that?
On Mon, Jun 25, 2018 at 2:45 PM Mercè Crosas <merce....@gmail.com> wrote:
I know we went back and forth about what to display for the citation of a data file because it's not straight forward - we don't have yet a well established best practice across repositories, so we are helping define the standard. Looking into it now again put in practice, and reading Sebastian's comments, I think that the clearest and most comprehensive way to show the citations in the file page is doing what Sebastian proposes:
- To cite this specific data file, please use (citation with file DOI)- To cite the whole dataset, please use (citation with dataset DOI)
Merce
----------Mercè Crosas, Ph.D., Chief Data Science and Technology Officer, IQSS, Harvard University
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