Sophie, I'll admit, I'm not really an OAI-PMH expert. But, at a glance, I don't think PubMed provides any way to "filter" by an institution.
This is based on looking at the OAI examples: http://www.ncbi.nlm.nih.gov/pmc/tools/oai_examples/ On that page, it looks like PubMed provides "Sets", but those Sets are publication based (so you can filter by a specific publication). The other issue is that if you look at some sample "oai_dc" records, I don't even see an institutional affiliation listed for authors. http://www.pubmedcentral.gov/oai/oai.cgi?verb=GetRecord&identifier=oai:pubmedcentral.nih.gov:152494&metadataPrefix=oai_dc So, I'm really not sure that you'd be able to filter by a specific institution. You could also get in touch with PubMed to ask them directly -- there's an email contact at the bottom of this page: http://www.ncbi.nlm.nih.gov/pmc/tools/oai/ - Tim On 5/23/2012 11:02 AM, Deng, Sai wrote: > Thank you, Tim!! > There is no way to harvest for a specific institution (publications > affiliated to one institution), right? I looked at the PubMed instructions > and it looks like their sets are defined by Publishers. > Here is my testing result: > OAI Provider: http://www.pubmedcentral.nih.gov/oai/oai.cgi > OAI Set id: aac (*This is for aac set. Seems no way to harvest > for an institution.) > Metadata format: Simple Dublin Core > Content being harvested: Harvest metadata only. > Last Harvest Result: Harvest from > http://www.pubmedcentral.nih.gov/oai/oai.cgi sucessful on 2012-05-22 > 16:18:43.386 > > I am thinking whether the harvesting interface can be include more options. > Is it possible to harvest only data from one university? > Vika from Boston posted these two questions before: > - Where in the harvesting settings can I specify things like the dates > from/until which I want to harvest? > > - If my collection has an accept/reject step, is there a way to make harvested > items completely invisible until they are accepted? Does the answer to this > depend on whether I'm harvesting only metadata, or also full-text files? > > Thank you for any insight! > Sophie > > > -----Original Message----- > From: Tim Donohue [mailto:tdono...@duraspace.org] > Sent: Wednesday, May 23, 2012 10:58 AM > To: Deng, Sai > Cc: dspace-tech@lists.sourceforge.net > Subject: Re: [Dspace-tech] Harvesting PubMed > > Sophie, > > I forgot to include the link to the DSpace documentation on how to harvest > external content via OAI-PMH: > > https://wiki.duraspace.org/display/DSDOC18/XMLUI+Configuration+and+Customization#XMLUIConfigurationandCustomization-HarvestingItemsfromXMLUIviaOAIOREorOAIPMH > > That may also be helpful! > > - Tim > > On 5/23/2012 10:55 AM, Tim Donohue wrote: >> Sophie, >> >> I've never tried this before, but it looks like PubMed supports >> OAI-PMH harvesting, so you should be able to configure DSpace to >> harvest content from PubMed via OAI-PMH. Here's the details from the PubMed >> website: >> >> http://www.ncbi.nlm.nih.gov/pmc/tools/oai/ >> >> It says the base URL you'd want to use is >> http://www.pubmedcentral.nih.gov/oai/oai.cgi >> >> It also has some examples of OAI requests to PubMed: >> http://www.ncbi.nlm.nih.gov/pmc/tools/oai_examples/ >> >> Hopefully that will help you out. >> >> - Tim >> >> On 5/22/2012 3:47 PM, Deng, Sai wrote: >>> Hi, >>> >>> Can anyone give me an example of harvesting PubMed publications from >>> a specific institution? In other words, could you show me how to >>> configure the auto harvesting under "Collection-Harvesting-Content >>> Source": >>> Content source: This collection harvests its content from an external >>> source OAI Provider:______________________ OAI Set id: Specific >>> sets_____________ Metadata Format: Simple Dublin Core [or] DSpace >>> Intermediate Metadata >>> >>> Content being harvested: Harvest metadata and bitstreams (requires >>> ORE >>> support) >>> >>> We've been downloading xml data directly from the PubMed website and >>> transform it to DCXML using some local VBscript. Then we export the >>> DCXML file to Excel, transform Excel to SIP packages using >>> BloomaMohan's program. We add several additional fields to the data >>> set and do quite some editing in the Excel file. I have been >>> wondering whether the auto harvesting will be a much better option. >>> Any opinion or suggestion? What's your experience? >>> >>> Thank you for your reply! >>> Sophie >>> >>> --------------------------------------------------------------------- >>> --------- >>> >>> Live Security Virtual Conference >>> Exclusive live event will cover all the ways today's security and >>> threat landscape has changed and how IT managers can respond. >>> Discussions will include endpoint security, mobile security and the >>> latest in malware threats. >>> http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ >>> _______________________________________________ >>> DSpace-tech mailing list >>> DSpace-tech@lists.sourceforge.net >>> https://lists.sourceforge.net/lists/listinfo/dspace-tech ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. 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