Morpho: Issueshttps://projects.ecoinformatics.org/ecoinfo/https://projects.ecoinformatics.org/ecoinfo/ecoinfo/favicon.ico?14691340362005-07-18T21:34:46ZEcoinformatics Redmine
Redmine Bug #2162 (Resolved): eml versions and dateTimeDomain requirementshttps://projects.ecoinformatics.org/ecoinfo/issues/21622005-07-18T21:34:46ZCallie Bowdishbowdish@nceas.ucsb.edu
<p>following error generated: cvc-complex-type.2.3: Element 'dateTimeDomain' must<br />have no character [children], because the types content type is element-only.</p>
<p>Conversation regarding the error having to do with two differing eml-versions<br />problem comes when someone adds a datatable to eml-2.0.0 - doesnt specify the<br />bounds and then opens the document in tree editor<br /><sid> and the tree editor enforces eml-2.0.0<br /><sid> and hence looks for the bound info<br /><sid> which is what happened in Callie's case<br /><sid> Mr. EML-2.0.1 agrees with you - whereas Mr. EML-2.0.0 doesnt<br /><vero> well since 2.0.1 is what we're using now...<br /><sid> Callie - add these to the list of things which will hopefully be fixed in<br />Morpho1.6.0 R C2</p>
<p>regarding the dateTimeDomain attribute and inside the bound tags you shud have<br />minimum and maximum</p>
<p><sid> that error was probably that dateTimeDoamin cant be trimmed because it is<br />required<br /><vero> it's not required in the NDPW<br /><vero> is it?</p> Bug #2131 (Resolved): Geographic coverage screen in dpw not saving coordinateshttps://projects.ecoinformatics.org/ecoinfo/issues/21312005-06-17T22:54:59ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>Following bugs were reported by Veronique in Geographic Coverage screen</p>
<p>1. Morpho accepted the coordinates i entered in the NDPW, but when i <br />clicked "edit" in the NDPW to edit the coordinates, the coordinates were reset <br />to 45.0 N, 45.0 S, 90.0 W, 90.0 E.</p>
<p>2. i clicked on edit, but then clicked on cancel. the coordinates i had entered <br />were displayed in the NDPW. i finished the NDPW and the dp opened: the <br />coordinates that were displayed were<br /> West: -90.0 degrees<br /> East: 90.0 degrees<br /> North: 45.0 degrees<br /> South: -45.0 degrees, <br />not the coordinates i had entered (even though i clicked on cancel for editing)</p> Bug #2097 (Resolved): Import Taxon Information from Data Tablehttps://projects.ecoinformatics.org/ecoinfo/issues/20972005-06-01T18:19:54ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>When you import taxonomic information as a data table, the information doesn't<br />get saved in the data package:</p>
<p>I went to "Taxonomic coverage" under the documentation menu, clicked on the<br />"Import Taxon Information from Data table" link, selected a column, chose<br />"species" as the taxon category and clicked OK. The first row of the table<br />under "Enter information about Taxonomic Coverage" had this information:</p>
<p>Rank: Genus; Name: blank (empty cell); Rank: Species; Name: blank (empty cell)</p>
<p>The following rows had the information I imported from the data table. When I<br />clicked on OK and went back to the dp, the taxonomic information I had just<br />imported didn't appear in the Data Package Documentation panel.</p>
<p>Having the first row of the "Enter information about Taxonomic Coverage" table<br />empty seems to be causing this problem because if you manually enter info in<br />this row using the Add button and then import info from a data table, all of the<br />info gets saved and appears in the Data Package Documentation panel.</p> Bug #2001 (Resolved): Add storage type field to Text Import Wizardhttps://projects.ecoinformatics.org/ecoinfo/issues/20012005-03-02T23:57:18ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>In the Text Import Wizard, we need to add two new fields: Storage Type System<br />and Storage type.</p> Bug #1799 (Resolved): Losing data tables when using “Export”https://projects.ecoinformatics.org/ecoinfo/issues/17992004-12-02T23:44:17ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>I exported a data package (dp) and when I checked the “data” subdirectory<br />generated from the export, not all the files corresponding to my dp’s data<br />tables (dt) were there.</p>
<p>I had three dt in my dp, and the 2nd one was one that I had created using the<br />“Describe” option (New DataTable Wizard/Describe/Automatic). The dt I was<br />missing after the export was the 3rd one displayed in the dp.</p>
<p>I investigated and created a few dp with varying numbers of dt, always including<br />a dt created with “Describe” (the other dt were created by automatically<br />importing a text file) and making sure the “describe” dt was always followed by<br />at least one dt. After I exported these dp, the dt missing were always the ones<br />that followed the “describe” dt.</p> Bug #1776 (Resolved): Catalog search followed by "open existing dp" does not return all dpshttps://projects.ecoinformatics.org/ecoinfo/issues/17762004-11-19T00:56:42ZAndrea Andreachadden@nceas.ucsb.edu
<p>If you do a search on the catalog (network), then close the search box, and <br />then click "open an existing data package" on the main morpho screen, none or <br />only a few of the data sets which should show up do. This contrasts with the <br />case where a search is performed either locally or locally+network, the search <br />results box is closed, and then the "open an existing data package" link is <br />clicked, and all the data packages which should be shown are.</p>
<p>This bug was discovered by Veronique.</p> Bug #1774 (Resolved): How to delete saved searches and old profiles should be explicithttps://projects.ecoinformatics.org/ecoinfo/issues/17742004-11-19T00:41:10ZAndrea Andreachadden@nceas.ucsb.edu
<p>Veronique noted that it would be helpful to the user if it were clear how to <br />delete an old profile, and also how to delete saved searches they no longer <br />want.</p> Bug #1769 (Resolved): access permissions re-set to yes for public readhttps://projects.ecoinformatics.org/ecoinfo/issues/17692004-11-18T18:16:40ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>The access permissions re-set to yes for the question "Would you like to allow<br />the public to read your dataset?" in two places:</p>
<p>1) When you are creating a New Data Package and you are at the Access<br />Permissions step: if you select "No, don't give read-only access to public.", go<br />back to the previous step (Methods), and then go forward (hit Next) to the<br />Access Permissions step again, it defaults to "Yes, give read-only access to<br />public."</p>
<p>2) When you have a Data Package opened and you select Access Permissions under<br />the Documentation menu, it defaults to "Yes, give read-only access to public." <br />even if you had chosen "No" before.</p> Bug #1754 (Resolved): expose title/abstract/creator in Documentation menuhttps://projects.ecoinformatics.org/ecoinfo/issues/17542004-11-02T00:22:21ZMatt Jonesjones@nceas.ucsb.edu
<p>Morpho currently exposes most wizard screens through the Documentation menu,<br />with the exception of some of the very basic ones (such as Creator,<br />Title/Abstract, etc). We need to add these so that ll informaiton that can be<br />entered in the wizard can be revised via the documentation menu.</p> Bug #1719 (Resolved): integrate Finch's MS Access plugin in next releasehttps://projects.ecoinformatics.org/ecoinfo/issues/17192004-10-19T16:16:19ZMatt Jonesjones@nceas.ucsb.edu
<p>Mike Finch from the CanopyDB project developed a plugin for Morpho that imports<br />MS Access databases and creates the metadata that can be extracted from the DB.<br /> Need to integrate this plugin into the next release, and test. In particular,<br />need to be sure it is only loaded on the Windows version of Morpho if in fact it<br />only works there.</p> Bug #1570 (Resolved): Error in uploading raw data to metacat...https://projects.ecoinformatics.org/ecoinfo/issues/15702004-05-18T14:44:48ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>Following error was reported by Johnoel Ancheta <<a class="email" href="mailto:johnoel@hawaii.edu">johnoel@hawaii.edu</a>></p>
<p>i am having some problems uploading to our metacat <br />server using morpho-1.5.1. it seems i can upload the <br />metadata but not the raw data. the error log is below.</p>
<p>docid in parseIdFromMessage: user1.54.1<br />MetacatDataStore: getting file from Metacat<br />Sending data to: <a class="external" href="https://localhost:8443/tao/servlet/metacat">https://localhost:8443/tao/servlet/metacat</a><br />HTTP Handler class is: sun.net.www.protocol.https.HttpsURLConnectionImpl<br />Name: docid => user1.54.1<br />Name: action => read<br />Name: qformat => xml<br />MetacatDataStore: getting file from Metacat<br />Sending data to: <a class="external" href="https://localhost:8443/tao/servlet/metacat">https://localhost:8443/tao/servlet/metacat</a><br />HTTP Handler class is: sun.net.www.protocol.https.HttpsURLConnectionImpl<br />Name: docid => WC97_241.2.1<br />Name: action => read<br />Name: qformat => xml<br />opening WC97_241/2.1 from temp dir - temp:<br />/home/tombo/johnoel/.morpho/profiles/user1/temp<br />id:WC97_241.2.1 filelength:4266572<br />Sending data to: |https://localhost:8443/tao/servlet/metacat|<br />Sending data file:<br />/home/tombo/johnoel/.morpho/profiles/user1/data/WC97_241/2.1<br />HTTP Handler class is: sun.net.www.protocol.https.HttpsURLConnectionImpl<br />HTTP Handler class is: sun.net.www.protocol.https.HttpsURLConnectionImpl<br />HTTP Handler class is: sun.net.www.protocol.https.HttpsURLConnectionImpl<br />Fatal error sending binary data to Metacat: Illegal character(s) in<br />message header value: multipart/form-data;<br />boundary=--------ieoau._._+2_8_8.3-dskdfJwSJKl234324jfLdsjfdAuaoei-----^M</p>
<p>java.lang.Exception: Illegal character(s) in message header value:<br />multipart/form-data;<br />boundary=--------ieoau._._+2_8_8.3-dskdfJwSJKl234324jfLdsjfdAuaoei-----^M</p>
<pre><code>at edu.ucsb.nceas.morpho.Morpho.sendDataFile(Morpho.java:743)<br /> at<br />edu.ucsb.nceas.morpho.datastore.MetacatDataStore.newDataFile<br />(MetacatDataStore.java:610)<br /> at<br />edu.ucsb.nceas.morpho.datapackage.AbstractDataPackage.handleMetacat<br />(AbstractDataPackage.java:2734)<br /> at<br />edu.ucsb.nceas.morpho.datapackage.AbstractDataPackage.serializeData<br />(AbstractDataPackage.java:2623)<br /> at<br />edu.ucsb.nceas.morpho.datapackage.EML200DataPackage.upload<br />(EML200DataPackage.java:267)<br /> at<br />edu.ucsb.nceas.morpho.datapackage.DataPackagePlugin.upload<br />(DataPackagePlugin.java:974)<br /> at<br />edu.ucsb.nceas.morpho.query.LocalToNetworkCommand$1.construct<br />(LocalToNetworkCommand.java:226)<br /> at<br />edu.ucsb.nceas.morpho.framework.SwingWorker$2.run(SwingWorker.java:140)<br /> at java.lang.Thread.run(Thread.java:534)<br />id:user1.55.1 filelength:4266572</code></pre> Bug #1504 (Resolved): Intermittant problem: DPW Finish Wizard / Enter New Tablehttps://projects.ecoinformatics.org/ecoinfo/issues/15042004-04-16T00:27:24ZRick Reevesreeves@nceas.ucsb.edu
<p>When adding a new data package with DPW, I get to the last screen, <br />where I can click 'Click to finish wizard and add new data table'.<br />Out of five tests, on two tests clicking this closes the wizard and <br />returns me to the main Morpho screen, and the data I had entered <br />into the DPW is lost. Three times, things worked and I successfully<br />entered a table.</p> Bug #1337 (Resolved): better handling of 'references' in XML editorhttps://projects.ecoinformatics.org/ecoinfo/issues/13372004-02-09T19:08:18ZDan Higginshiggins@nceas.ucsb.edu
<p>The display and handling of eml2 'references' node in the XML editor is<br />confusing. Display should automatically look up 'references' (i.e. like a macro)<br />and show the referenced information. CHOICEs between data and 'references' would<br />then not be shown in the tree, simplifying display.</p> Bug #1276 (Resolved): Comments on Data Package from Andrea Chaddenhttps://projects.ecoinformatics.org/ecoinfo/issues/12762004-01-23T22:04:20ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>Reported in morpho-feedback-20040122.doc in /doc/devs/ by Andrea Chadden</p>
<p>1. After the new Datapackage is named by the user, the data package window <br />banner should show the selected name, not the string “Data Package: new”. <br />My comments: I agree. Can be changed once agreed upon by everyone.</p>
<p>2. (Throughout the User Interface): Which is correct: Datapackage or Data <br />Package? Pick one and use it consistently. <br />My comments: I agree. Can be changed once agreed upon by everyone.</p>
<p>3. Main Screen: At top of screen, under “File” menu, selections are not left-<br />justified.<br />My comments: I agree. Can be changed once agreed upon by everyone.</p>
<p>4. Perhaps the ‘Help’ feature should be renamed ‘User Guide’(as it is called <br />elsewhere), as this sounds more useful than the type of (mostly useless) Help <br />features found on many Microsoft applications. <br />My comments: I agree for two reason: to be consistent and User Guide sounds <br />better than the type of (mostly useless) Help. Can be changed once agreed upon <br />by everyone.</p> Bug #1209 (Resolved): Add functionality to EML 2 stylesheets written by Jing so that they can be ...https://projects.ecoinformatics.org/ecoinfo/issues/12092003-11-17T18:29:03ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>Two tasks to be done here..<br />1. First is to fix the stylesheets so that view in Java Browser is correctly <br />rendered. The columns inside tables don't lineup correctly currently. <br />2. The second change is to add functionality to eml2 so that they take <br />parameters for returning html with descriptions of entities and attributes. <br />This is required for viewing entity and attribute details inside Morpho.</p>