datacite-mapping 0.2.1 → 0.2.2

data/spec/data/dash1/dataone-ark+=c5146=r3tg63-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -33,4 +34,4 @@
 - Rainfall data was recorded in millimeters and it was converted into inches
 - Rain gauge was cleaned after recording</description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/dataone-ark+=c5146=r3v883-mrt-datacite.xml

@@ -0,0 +1,63 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+  <identifier identifierType="DOI"/>
+  <creators>
+    <creator>
+      <creatorName>Vandeleest, Jessica</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Beisner, Brianne</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Hannibal, Darcy</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Nathman, Amy</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Capitanio, John</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Fushing, Hsieh</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Atwill, Edward</creatorName>
+    </creator>
+    <creator>
+      <creatorName>McCowan, Brenda</creatorName>
+    </creator>
+  </creators>
+  <titles>
+    <title>Data associated with Vandeleest, Beisner et al. (PeerJ, 2016) "Decoupling Social Status and Status Certainty Effects on Health in Macaques: A Network Approach"</title>
+  </titles>
+  <publisher>DataONE</publisher>
+  <publicationYear>2016</publicationYear>
+  <subjects>
+    <subject>Social Status</subject>
+    <subject>Inflammation</subject>
+    <subject>Nonhuman primate</subject>
+  </subjects>
+  <contributors>
+    <contributor contributorType="DataManager">
+      <contributorName>Vandeleest, Jessica</contributorName>
+    </contributor>
+    <contributor contributorType="Funder">
+      <contributorName>National Institutes of Health. Select a sub-organization</contributorName>
+    </contributor>
+  </contributors>
+  <relatedIdentifiers>
+    <relatedIdentifier relatedIdentifierType="URL" relationType="Cites">https://cran.r-project.org/web/packages/Perc/index.html</relatedIdentifier>
+  </relatedIdentifiers>
+  <resourceType resourceTypeGeneral="Dataset">Dataset</resourceType>
+  <sizes>
+    <size>47635</size>
+  </sizes>
+  <rightsList>
+    <rights rightsURI="http://creativecommons.org/publicdomain/zero/1.0/">Creative Commons Public Domain Dedication (CC0)</rights>
+  </rightsList>
+  <descriptions>
+    <description descriptionType="Abstract">Although a wealth of literature points to the importance of social factors on health, a detailed understanding of the complex interplay between social and biological systems is lacking. Social status is one aspect of social life that is made up of multiple structural (humans: income, education; animals: mating system, dominance rank) and relational components (perceived social status, dominance interactions). In a nonhuman primate model we use novel network techniques to decouple two components of social status, dominance rank (a commonly used measure of social status in animal models) and dominance certainty (the relative certainty vs. ambiguity of an individual’s status), allowing for a more complex examination of how social status impacts health. Data include subject ID, demographics, social status indicators, and select health outcomes. </description>
+    <description descriptionType="Methods">Behavioral observations to calculate dominance rank and certainty were conducted on three outdoor captive groups of rhesus macaques (N=252 subjects), each group was observed for 5-7 weeks. Dominance rank and certainty were calculated using the Perc package in R (Fujii et al., 2015) using a network-based approach. Subjects’ general physical health (diarrhea) was assessed twice weekly and from these data, we counted the total frequency of bouts of diarrhea per subject across the 5-7 week observation period. Blood was drawn once to assess biomarkers of inflammation (interleukin-6, tumor necrosis factor-alpha, and C-reactive protein). Due to the large number of animals, blood was collected in batches of ~15 samples, this variable is described in the present dataset as SamplingOrder. Serum levels of IL-6 and TNF-α were measured using commercially available, species specific Milliplex multi-analyte profiling (MAP) reagents purchased from EMD / Millipore (Billerica, MA), and utilizing Luminex Xmap technology (Luminex, Austin, TX). Concentrations of CRP were determined using a latex particle immunoturbidmetric method on the Beckman Coulter AU480 clinical chemistry analyzer. Additional methodology is available in Vandeleest, Beisner et al. (2016).</description>
+    <description descriptionType="Other">R01-HD068335 &amp; P51-OD01107-53</description>
+  </descriptions>
+</resource>

data/spec/data/dash1/dataone-ark+=c5146=r3x30z-mrt-datacite.xml

@@ -0,0 +1,43 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+  <identifier identifierType="DOI"/>
+  <creators>
+    <creator>
+      <creatorName>Bartomeus, I.</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Vilà, M.</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Santamaria, L</creatorName>
+    </creator>
+  </creators>
+  <titles>
+    <title>Contrasting effects of invasive plants in plant-pollinator networks</title>
+  </titles>
+  <publisher>DataONE</publisher>
+  <publicationYear>2016</publicationYear>
+  <subjects>
+    <subject>species interaction</subject>
+    <subject>plant polinator</subject>
+    <subject>Carpobrotus affine acinaciformis</subject>
+    <subject>Opuntia strict</subject>
+  </subjects>
+  <contributors>
+    <contributor contributorType="DataManager">
+      <contributorName>Salim, José Augusto</contributorName>
+    </contributor>
+  </contributors>
+  <relatedIdentifiers/>
+  <resourceType resourceTypeGeneral="Dataset">Dataset</resourceType>
+  <sizes>
+    <size>65741</size>
+  </sizes>
+  <rightsList>
+    <rights rightsURI="http://creativecommons.org/publicdomain/zero/1.0/">Creative Commons Public Domain Dedication (CC0)</rights>
+  </rightsList>
+  <descriptions>
+    <description descriptionType="Abstract">The authors compared uninvaded and invaded ecological communities, to examine how two species of invasive plants with large and showy flowers (Carpobrotus affine acinaciformis and Opuntia stricta) affect the structure of Mediterranean plant–pollinator networks at the Natural Park of Cap de Creus, Catalonia</description>
+    <description descriptionType="Methods">Datasets describe the frequency of visits observed for each pollinator-plant interaction. The study involved pollinator surveys in 3 sites per study species. Pairs of invaded and uninvaded plots were samples in all sites. Sites were sampled every 2 weeks during the entire flowering period of both C. affine acinaciformis and O. stricta. Each plant species was sampled during 6 minutes. Each species was sampled for a total of 36 minutes per site. In total, each site was surveyed by pollinators for more than 6 hours.</description>
+  </descriptions>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1159q-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -50,4 +51,4 @@
     <description descriptionType="Abstract">several software suites which support access to the STEDT database.  These are written in PERL and PHP, and present different capabilities and dimensions of this linguistic data.  This object is a compressed archive of the svn code repository for the project as of January 5, 2015. The active repository is now on GitHub at https://github.com/stedt-project/sss.</description>
     <description descriptionType="Other">BCS-1028192</description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d17g6j-mrt-datacite.xml

@@ -1,50 +1,51 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
-  <identifier identifierType="DOI"/>
-  <creators>
-    <creator>
-      <creatorName>Swanson-Hysell, Nicholas</creatorName>
-      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0003-3215-4648</nameIdentifier>
-    </creator>
-    <creator>
-      <creatorName>Burgess, Seth</creatorName>
-    </creator>
-    <creator>
-      <creatorName>Maloof, Adam</creatorName>
-    </creator>
-    <creator>
-      <creatorName>Bowring, Samuel</creatorName>
-      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0001-9722-469X</nameIdentifier>
-    </creator>
-  </creators>
-  <titles>
-    <title>Magmatic activity and plate motion during the latent stage of Midcontinent Rift development</title>
-  </titles>
-  <publisher>UC Berkeley</publisher>
-  <publicationYear>2015</publicationYear>
-  <subjects>
-    <subject>Midcontinent Rift</subject>
-    <subject>Large Igneous Province</subject>
-    <subject>U-Pb geochronology</subject>
-    <subject>paleomagnetism</subject>
-    <subject>Mamainse Point</subject>
-    <subject>geology</subject>
-    <subject>Mesoproterozoic</subject>
-  </subjects>
-  <relatedIdentifiers>
-    <relatedIdentifier relatedIdentifierType="URL" relationType="IsDocumentedBy">http://escholarship.org/uc/item/989179cs</relatedIdentifier>
-    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsDocumentedBy">10.1130/G35271.1</relatedIdentifier>
-  </relatedIdentifiers>
-  <resourceType resourceTypeGeneral="Collection">Collection</resourceType>
-  <rightsList>
-    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
-  </rightsList>
-  <descriptions>
-    <description descriptionType="Abstract">The Keweenawan Midcontinent Rift of North America records significant continental rifting between ca. 1110 and 1085 Ma, and preserves the most detailed paleomagnetic record of plate motion of any continent in Precambrian time. U/Pb dates from extrusive and intrusive rocks of the western Lake Superior Basin suggest a latent stage of reduced magmatic activity from ca. 1106 to 1100 Ma that places constraints on the dynamics of rift development and the record of plate motion. However, it has remained unclear whether this stage is a feature of the entire &gt;2500-km-long rift. The succession of picritic and basaltic lava flows at Mamainse Point in the eastern Lake Superior Basin may be the most continuous and best exposed record of rift-related volcanism and magnetic reversals, but its age and duration relative to the latent stage has been uncertain due to a lack of radioisotopic dates. We present a weighted mean 206Pb/238U date of 1100.36 ± 0.25 Ma on zircon crystals isolated from a newly discovered tuff within the upper reversed polarity portion of the stratigraphy below the Great Conglomerate. This date indicates that eruptive activity at Mamainse Point continued during the interval of diminished magmatic activity in the western Lake Superior Basin. This result strengthens the chronostratigraphic framework of rift development while explaining the preservation of additional geomagnetic reversals at Mamainse Point and the record of progressively decreasing paleomagnetic inclination that is indicative of rapid paleogeographic change.</description>
-    <description descriptionType="Methods">The Data folder contains three files:
-      MP_Pmag_Summary.xlsx: This excel spreadsheet has all of the site mean data used in the study. There are four sheets within the spreadsheet (1) the latex formatted text that was used to generated the table in the GSA data repository; (2) an interactive worksheet where Fisher means can be calculated from the flow means; (3) a sheet with preliminary formatting for the MagIC database and (4) data in the format that was exported for the Mamainse_Point_data.csv file.
-      Mamainse_Point_data.csv: This csv file contains the flow (i.e. site) mean paleomagnetic data as well as the locations of the flows stratigraphically and geographically (lat, long is in WGS84). These data are imported and analyzed in the IPython notebook.
-      NSVGsubset_VGP.txt, SCV_VGP.txt, SI_upperthird_VGP.txt: Text files used for comparitive analysis in the IPython notebook. See paper text for more details.
-      The Code folder contains an IPython notebook that contains statistical data analysis and plotting associated with paleomagnetic data in the the manuscript. In addition to the IPython notebook, the folder contains the pmag.py, pmagplotlib.py, and pmagpyrc.py libraries of PmagPy version 2.206 as well as a library IPmag.py that modifies some of the interactive programs of PmagPy for use in the IPython environment in addition to providing some new functions. This folder also contains a PDF version of notebook to be viewed outside of the IPython generated using nbconvert. Note that the IPython notebook can also be viewed online without an IPython installation at this link where it is rendered better than in the PDF output:
-      http://nbviewer.ipython.org/github/Swanson-Hysell/2014_Swanson-Hysell-et-al_Mamainse/blob/master/Code/Mamainse_Data_Analysis.ipynb</description>
-  </descriptions>
-</resource>
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+  <identifier identifierType="DOI"/>
+  <creators>
+    <creator>
+      <creatorName>Swanson-Hysell, Nicholas</creatorName>
+      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0003-3215-4648</nameIdentifier>
+    </creator>
+    <creator>
+      <creatorName>Burgess, Seth</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Maloof, Adam</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Bowring, Samuel</creatorName>
+      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0001-9722-469X</nameIdentifier>
+    </creator>
+  </creators>
+  <titles>
+    <title>Magmatic activity and plate motion during the latent stage of Midcontinent Rift development</title>
+  </titles>
+  <publisher>UC Berkeley</publisher>
+  <publicationYear>2015</publicationYear>
+  <subjects>
+    <subject>Midcontinent Rift</subject>
+    <subject>Large Igneous Province</subject>
+    <subject>U-Pb geochronology</subject>
+    <subject>paleomagnetism</subject>
+    <subject>Mamainse Point</subject>
+    <subject>geology</subject>
+    <subject>Mesoproterozoic</subject>
+  </subjects>
+  <relatedIdentifiers>
+    <relatedIdentifier relatedIdentifierType="URL" relationType="IsDocumentedBy">http://escholarship.org/uc/item/989179cs</relatedIdentifier>
+    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsDocumentedBy">10.1130/G35271.1</relatedIdentifier>
+  </relatedIdentifiers>
+  <resourceType resourceTypeGeneral="Collection">Collection</resourceType>
+  <rightsList>
+    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
+  </rightsList>
+  <descriptions>
+    <description descriptionType="Abstract">The Keweenawan Midcontinent Rift of North America records significant continental rifting between ca. 1110 and 1085 Ma, and preserves the most detailed paleomagnetic record of plate motion of any continent in Precambrian time. U/Pb dates from extrusive and intrusive rocks of the western Lake Superior Basin suggest a latent stage of reduced magmatic activity from ca. 1106 to 1100 Ma that places constraints on the dynamics of rift development and the record of plate motion. However, it has remained unclear whether this stage is a feature of the entire >2500-km-long rift. The succession of picritic and basaltic lava flows at Mamainse Point in the eastern Lake Superior Basin may be the most continuous and best exposed record of rift-related volcanism and magnetic reversals, but its age and duration relative to the latent stage has been uncertain due to a lack of radioisotopic dates. We present a weighted mean 206Pb/238U date of 1100.36 ± 0.25 Ma on zircon crystals isolated from a newly discovered tuff within the upper reversed polarity portion of the stratigraphy below the Great Conglomerate. This date indicates that eruptive activity at Mamainse Point continued during the interval of diminished magmatic activity in the western Lake Superior Basin. This result strengthens the chronostratigraphic framework of rift development while explaining the preservation of additional geomagnetic reversals at Mamainse Point and the record of progressively decreasing paleomagnetic inclination that is indicative of rapid paleogeographic change.</description>
+    <description descriptionType="Methods">The Data folder contains three files:
+      MP_Pmag_Summary.xlsx: This excel spreadsheet has all of the site mean data used in the study. There are four sheets within the spreadsheet (1) the latex formatted text that was used to generated the table in the GSA data repository; (2) an interactive worksheet where Fisher means can be calculated from the flow means; (3) a sheet with preliminary formatting for the MagIC database and (4) data in the format that was exported for the Mamainse_Point_data.csv file.
+      Mamainse_Point_data.csv: This csv file contains the flow (i.e. site) mean paleomagnetic data as well as the locations of the flows stratigraphically and geographically (lat, long is in WGS84). These data are imported and analyzed in the IPython notebook.
+      NSVGsubset_VGP.txt, SCV_VGP.txt, SI_upperthird_VGP.txt: Text files used for comparitive analysis in the IPython notebook. See paper text for more details.
+      The Code folder contains an IPython notebook that contains statistical data analysis and plotting associated with paleomagnetic data in the the manuscript. In addition to the IPython notebook, the folder contains the pmag.py, pmagplotlib.py, and pmagpyrc.py libraries of PmagPy version 2.206 as well as a library IPmag.py that modifies some of the interactive programs of PmagPy for use in the IPython environment in addition to providing some new functions. This folder also contains a PDF version of notebook to be viewed outside of the IPython generated using nbconvert. Note that the IPython notebook can also be viewed online without an IPython installation at this link where it is rendered better than in the PDF output:
+      http://nbviewer.ipython.org/github/Swanson-Hysell/2014_Swanson-Hysell-et-al_Mamainse/blob/master/Code/Mamainse_Data_Analysis.ipynb</description>
+  </descriptions>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1c88g-mrt-datacite.xml

@@ -1,47 +1,48 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
-  <identifier identifierType="DOI"/>
-  <creators>
-    <creator>
-      <creatorName>Swanson-Hysell, Nicholas</creatorName>
-      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0003-3215-4648</nameIdentifier>
-    </creator>
-    <creator>
-      <creatorName>Vaughn, Angus</creatorName>
-    </creator>
-    <creator>
-      <creatorName>Mustain, Monica</creatorName>
-    </creator>
-    <creator>
-      <creatorName>Asp, Kristofer</creatorName>
-    </creator>
-  </creators>
-  <titles>
-    <title>Confirmation of progressive plate motion during the Midcontinent Rift’s early magmatic stage from the Osler Volcanic Group, Ontario, Canada</title>
-  </titles>
-  <publisher>UC Berkeley</publisher>
-  <publicationYear>2015</publicationYear>
-  <subjects>
-    <subject>paleomagnetism</subject>
-    <subject>Midcontinent Rift</subject>
-    <subject>paleogeography</subject>
-    <subject>geomagnetic field</subject>
-  </subjects>
-  <relatedIdentifiers>
-    <relatedIdentifier relatedIdentifierType="URL" relationType="IsDocumentedBy">http://escholarship.org/uc/item/9qx4j3zq</relatedIdentifier>
-    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsDocumentedBy">10.1002/2013GC005180</relatedIdentifier>
-  </relatedIdentifiers>
-  <resourceType resourceTypeGeneral="Collection">Collection</resourceType>
-  <rightsList>
-    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
-  </rightsList>
-  <descriptions>
-    <description descriptionType="Abstract">As the supercontinent Rodinia was assembling ca. 1.1 billion years ago, there was extensive magmatism on at least five Proterozoic continents including the development of the North American Midcontinent Rift. New paleomagnetic data from 84 lava flows of the Osler Volcanic Group of the Midcontinent Rift reveal that there was a significant and progressive decrease in inclination between the initiation of extrusive volcanism in the region (ca. 1110 Ma) and ca. 1105 ± 2 Ma (during the “early stage” of rift development). Paleomagnetic poles can be calculated for the lower portion of the reversed Osler Volcanic Group (40.9°N, 218.6°E, A95 = 4.8°, N = 30) and the upper portion of the reversed Osler Volcanic Group (42.5°N, 201.6°E, A95 = 3.7°, N = 59; this pole can be assigned the age of ca. 1105 ± 2 Ma). This result is a positive test of the hypothesis that there was significant plate motion during the early stage of rift development. In addition to being a time of widespread volcanism on Laurentia and other continents, this interval of the late Mesoproterozoic was characterized by rapid paleogeographic change.</description>
-    <description descriptionType="Methods">The 2014_Osler_data folder contains these files:
-      Simpson_Island_alldata.xlsx: This excel spreadsheet has all of the specimen level data and details the flow mean calculations.
-      SimpsonIsland_OslerData.csv: This csv file contains the flow (i.e. site) mean paleomagnetic data as well as the locations of the flows stratigraphically and geographically (lat, long is in WGS84).
-      Halls1974_data.csv: This csv file contains data from the Halls (1974) study of the Osler Volcanics.
-      Tauxe2009a_data.csv: This csv file contains data from the Tauxe and Kodama (2009) study of the North Shore Volcanic Group.
-      The 2014_Osler_Manuscript folder contains the manuscript and figure files. The source .tex file and individual figure files are in the folder along with the compiled .pdf file.
-      The 2014_Osler_Code folder contains an IPython notebook with all of the statistical data analysis and plotting for the manuscript. In addition to the IPython notebook, the folder contains the pmag.py, and pmagplotlib.py libraries of PmagPy version 2.206 as well as a newly developed library IPmag.py that modifies some of the interactive programs of PmagPy for use in the IPython environment in addition to providing new functions. This folder also contains a PDF version of notebook to be viewed outside of the IPython that is the supporting online material to the G^3 manuscript. Note that the IPython notebook can also be viewed online as rendered html without an IPython installation at this link: http://nbviewer.ipython.org/urls/raw.github.com/Swanson-Hysell/2014_Swanson-Hysell-et-al_Osler/master/2014_Osler_Code/2014_Osler_Data_Analysis.ipynb</description>
-  </descriptions>
-</resource>
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+  <identifier identifierType="DOI"/>
+  <creators>
+    <creator>
+      <creatorName>Swanson-Hysell, Nicholas</creatorName>
+      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://www.orcid.org">0000-0003-3215-4648</nameIdentifier>
+    </creator>
+    <creator>
+      <creatorName>Vaughn, Angus</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Mustain, Monica</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Asp, Kristofer</creatorName>
+    </creator>
+  </creators>
+  <titles>
+    <title>Confirmation of progressive plate motion during the Midcontinent Rift’s early magmatic stage from the Osler Volcanic Group, Ontario, Canada</title>
+  </titles>
+  <publisher>UC Berkeley</publisher>
+  <publicationYear>2015</publicationYear>
+  <subjects>
+    <subject>paleomagnetism</subject>
+    <subject>Midcontinent Rift</subject>
+    <subject>paleogeography</subject>
+    <subject>geomagnetic field</subject>
+  </subjects>
+  <relatedIdentifiers>
+    <relatedIdentifier relatedIdentifierType="URL" relationType="IsDocumentedBy">http://escholarship.org/uc/item/9qx4j3zq</relatedIdentifier>
+    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsDocumentedBy">10.1002/2013GC005180</relatedIdentifier>
+  </relatedIdentifiers>
+  <resourceType resourceTypeGeneral="Collection">Collection</resourceType>
+  <rightsList>
+    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
+  </rightsList>
+  <descriptions>
+    <description descriptionType="Abstract">As the supercontinent Rodinia was assembling ca. 1.1 billion years ago, there was extensive magmatism on at least five Proterozoic continents including the development of the North American Midcontinent Rift. New paleomagnetic data from 84 lava flows of the Osler Volcanic Group of the Midcontinent Rift reveal that there was a significant and progressive decrease in inclination between the initiation of extrusive volcanism in the region (ca. 1110 Ma) and ca. 1105 ± 2 Ma (during the “early stage” of rift development). Paleomagnetic poles can be calculated for the lower portion of the reversed Osler Volcanic Group (40.9°N, 218.6°E, A95 = 4.8°, N = 30) and the upper portion of the reversed Osler Volcanic Group (42.5°N, 201.6°E, A95 = 3.7°, N = 59; this pole can be assigned the age of ca. 1105 ± 2 Ma). This result is a positive test of the hypothesis that there was significant plate motion during the early stage of rift development. In addition to being a time of widespread volcanism on Laurentia and other continents, this interval of the late Mesoproterozoic was characterized by rapid paleogeographic change.</description>
+    <description descriptionType="Methods">The 2014_Osler_data folder contains these files:
+      Simpson_Island_alldata.xlsx: This excel spreadsheet has all of the specimen level data and details the flow mean calculations.
+      SimpsonIsland_OslerData.csv: This csv file contains the flow (i.e. site) mean paleomagnetic data as well as the locations of the flows stratigraphically and geographically (lat, long is in WGS84).
+      Halls1974_data.csv: This csv file contains data from the Halls (1974) study of the Osler Volcanics.
+      Tauxe2009a_data.csv: This csv file contains data from the Tauxe and Kodama (2009) study of the North Shore Volcanic Group.
+      The 2014_Osler_Manuscript folder contains the manuscript and figure files. The source .tex file and individual figure files are in the folder along with the compiled .pdf file.
+      The 2014_Osler_Code folder contains an IPython notebook with all of the statistical data analysis and plotting for the manuscript. In addition to the IPython notebook, the folder contains the pmag.py, and pmagplotlib.py libraries of PmagPy version 2.206 as well as a newly developed library IPmag.py that modifies some of the interactive programs of PmagPy for use in the IPython environment in addition to providing new functions. This folder also contains a PDF version of notebook to be viewed outside of the IPython that is the supporting online material to the G^3 manuscript. Note that the IPython notebook can also be viewed online as rendered html without an IPython installation at this link: http://nbviewer.ipython.org/urls/raw.github.com/Swanson-Hysell/2014_Swanson-Hysell-et-al_Osler/master/2014_Osler_Code/2014_Osler_Data_Analysis.ipynb</description>
+  </descriptions>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1cc74-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI">10.6078/D1CC74</identifier>
   <creators>
     <creator>
@@ -68,4 +69,4 @@
   <descriptions>
     <description descriptionType="Abstract">The Nudix superfamily encompasses over 80,000 protein domains from all three domains of life. These proteins fall into four general functional classes: isopentenyl diphosphate isomerases (IDIs), adenine/guanine mismatch-specific adenine glycosylases (A/G-specific adenine glycosylases), pyrophosphohydrolases, and non-enzymatic activities such as protein/protein interaction and transcriptional regulation. The largest group, pyrophosphohydrolases, encompasses more than 100 distinct hydrolase specificities. To understand the evolution of this vast number of activities, we assembled and analyzed experimental and structural data for 205 Nudix proteins collected from the literature. We corrected erroneous functions or provided more appropriate descriptions for 53 annotations described in the Gene Ontology Annotation database in this family, and propose 275 new experimentally-based annotations. We manually constructed structure-guided sequence alignment of 78 Nudix proteins. Using the structural alignment as a seed, we then made an alignment of 347 “select” Nudix domains, curated from structurally determined, functionally characterized, or phylogenetically important Nudix domains. Based on our review of Nudix pyrophosphohydrolase structures and specificities, we further analyzed a loop region downstream of the Nudix hydrolase motif previously shown to contact the substrate molecule and possess known functional motifs. This loop region provides a potential structural basis for the functional radiation and evolution of substrate specificity within the hydrolase family. Finally, phylogenetic analyses of the 347 select protein domains and of the complete Nudix clan revealed general monophyly with regard to function and a few instances of probable homoplasy.</description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1h019-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -35,4 +36,4 @@
 
 Paired end reads for each library were aligned to the NCBI human RefSeq transcriptome (Pruitt et al., 2009) with Bowtie (Langmead et al., 2009) to determine the average insert size and standard deviation, required as a parameter by TopHat (Trapnell et al., 2009). The reads of each library were then aligned to the human genome (hg19 assembly, Feb. 2009; downloaded from UCSC genome browser (Fujita et al., 2011)) using TopHat v1.2.0 with default parameters plus the following: --coverage search, --allow indels, --microexon search, and --butterfly search. Cufflinks 1.0.1 (Roberts et al., 2011; Trapnell et al., 2010) was used to assemble each set of aligned reads into transcripts with the UCSC known transcript set (Fujita et al., 2011) as the reference guide, along with the following parameters: --frag-bias-correct, and --multi-read-correct. Cuffcompare (a sub-tool of Cufflinks) was used to merge the resulting sets of assembled transcripts. Each junction was assigned a Shannon entropy score based on offset of spliced reads across all four libraries. Transcripts with a junction that had an entropy score &lt;1 and was not present in the reference annotation were filtered out. Cuffdiff (a sub-tool of Cufflinks) was used to quantify and compare transcript abundance (measured by FPKM, Fragments Per Kilobase per Million reads) between the UPF1 knockdown and control samples. For each sample, the reads from two biological replicates were provided. The following parameters were used: --frag-bias-correct and --multi-read-correct. Only transcripts with FPKM&gt;1 in either the control or UPF1 knockdown sample were used for further analysis. A transcript was called significantly more abundant in the UPF1 knockdown sample if Cuffdiff called it significantly changing and the fold change was greater than 1.5x. Significantly decreased transcript abundances were determined in the same way. For each transcript, the coding sequence (CDS) was determined as described in the Supplementary Methods. A coding sequence was defined to terminate in a premature stop codon (PTC50nt) if it stops at least 50 nucleotides upstream of the last exon-exon junction (50nt rule in mammals (Nagy and Maquat, 1998)). NMD targets were defined as those transcripts with both a PTC50nt and significantly increased expression abundance in NMD inhibited (UPF1 knockdown) cells. The transcripts must also increase in each biological replicate when analyzed independently and come from a gene with a non-PTC50nt-containing isoform with FPKM&gt;0. To obtain a more reliable list of NMD-targeted transcripts, only those transcripts that adhered to either of the following criteria were kept: 1) No non-PTC50nt-containing isoform from the gene was more than 1.2-fold higher in the NMD inhibited sample, or 2) the PTC50nt-containing isoform increased at least 2x more than the sum of all non-PTC50nt-containing isoform FPKMs from the gene in NMD inhibited cells. </description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1ms3x-mrt-datacite.xml

@@ -1,4 +1,5 @@
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+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -39,4 +40,4 @@
 </description>
     <description descriptionType="Other">1408107</description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1mw2k-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -36,4 +37,4 @@
     <description descriptionType="Abstract">Student ratings of teaching play an important role in decisions about hiring, tenure, and compensation for instructors in higher education. In face-to-face classrooms, researchers are limited in their ability to test for the existence of bias in such ratings, as it is difficult to mask or misrepresent the gender of an instructor in the classroom. However, in the online environment is it possible to disguise an instructor’s gender identity, and therefore isolate the effects of gender bias independent of instructor performance. These data were collected during a controlled pseudo-experiment in which a male and female assistant instructor helped teach an online class, each under both male and female identities. Students were asked to rate their instructors on 12 measures, and overall. Data include the group to which students were assigned, their responses to the evaluation, and demographic information including their gender and birth year. The data also include course grades for each group. </description>
     <description descriptionType="Methods">Students in the class were randomly assigned to one of four work groups, which were divided between two instructors, one male and one female. Unbeknownst to the students, each instructor interacted with one group under their own identity and a second under their fellow instructor’s identity. We created a survey asking students to rate their instructors on 12 measures, and overall. Six questions asked about “effectiveness” traits, e.g. professionalism and promptness. Six questions asked about “interpersonal” traits, e.g. enthusiasm and giving praise. </description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1rg66-mrt-datacite.xml

@@ -1,4 +1,5 @@
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+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -36,4 +37,4 @@
     <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
   </rightsList>
   <descriptions/>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1rp4h-mrt-datacite.xml

@@ -1,4 +1,5 @@
-<?xml version="1.0" encoding="utf-8"?><resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
   <identifier identifierType="DOI"/>
   <creators>
     <creator>
@@ -50,4 +51,4 @@
     <description descriptionType="Methods">Participants in the intervention group received the educational tool, while control participants did not. This dataset contains data from a postpartum online survey of these participants, including data on prenatal and postpartum leave and reasons for taking/not taking leave. Intervention participants were asked if they read the tool, how they used the tool, and how helpful it was in planning their leave. 
 </description>
   </descriptions>
-</resource>
+</resource>

data/spec/data/dash1/ucb-ark+=b6078=d1v88t-mrt-datacite.xml

@@ -0,0 +1,31 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<resource xmlns="http://datacite.org/schema/kernel-3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-3 http://schema.datacite.org/meta/kernel-3/metadata.xsd">
+  <identifier identifierType="DOI"/>
+  <creators>
+    <creator>
+      <creatorName>Wittenberg, Jamie</creatorName>
+    </creator>
+    <creator>
+      <creatorName>Sackmann, Anna</creatorName>
+    </creator>
+  </creators>
+  <titles>
+    <title>Educational Resources from UC Berkeley RDM Librarian Training Program</title>
+  </titles>
+  <publisher>UC Berkeley</publisher>
+  <publicationYear>2016</publicationYear>
+  <subjects>
+    <subject>open educational resources</subject>
+    <subject>research data management</subject>
+    <subject>library professional development</subject>
+  </subjects>
+  <relatedIdentifiers/>
+  <resourceType resourceTypeGeneral="Text">Text</resourceType>
+  <sizes>
+    <size>1452</size>
+  </sizes>
+  <rightsList>
+    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International (CC-BY 4.0)</rights>
+  </rightsList>
+  <descriptions/>
+</resource>