Morpho: Issueshttps://projects.ecoinformatics.org/ecoinfo/https://projects.ecoinformatics.org/ecoinfo/ecoinfo/favicon.ico?14691340362017-08-10T16:07:14ZEcoinformatics Redmine
Redmine Bug #7205 (New): IDs mishandled when an update is made to a package with a DOIhttps://projects.ecoinformatics.org/ecoinfo/issues/72052017-08-10T16:07:14ZJeanette Clark
<p>From a user:</p>
<p>"Hi Julien, sorry to bother you again but I have one more question. I’m<br />trying to update my data sets to include the DOI for the accompanying<br />article (it’s not out yet but I just got the DOI). For one of my data sets<br />I mistakenly hit “publish with DOI” and now I can’t edit / update the<br />record at all either online or via morpho:</p>
<p><a class="external" href="https://knb.ecoinformatics.org/#view/doi:10.5063/F12Z13MD">https://knb.ecoinformatics.org/#view/doi:10.5063/F12Z13MD</a></p>
<p>Online it says I don’t have access, in morpho I get this error:</p>
<p>"Problem with saving to metacat in EML200DataPackage! <?xmlversion = "1.0"><error>Could not write file: /var/metacat/documents/doi:10.5063/F12Z13MD.2: /var/metacat/documents/doi:10.5063/F12Z13MD.2 (No such file or directory)</error></p>
<p>Any tips on how I can fix this and update the record to include the DOI?"</p>
<p>It seems like the user accidentally applied a DOI and then tried to go back to Morpho to edit the package, where it tried to write the new identifier as the DOI.2</p>
<p>The user's problem has been remedied but it seems like this behavior should be fixed</p> Bug #7175 (New): The link for non-numeric attribute domains doesn't work on the exported eml filehttps://projects.ecoinformatics.org/ecoinfo/issues/71752017-03-21T16:32:28ZJing Taotao@nceas.ucsb.edu
<p>To Whom It May Concern:</p>
<p>I am trying to use Morpho to create metadata for a project (Morpho has been updated to the latest version). I have entered all the information (that I have at this time, at least) into Morpho and can view everything that I’ve entered within the software. When I export the metadata and view the html or pdf files, everything is great except with defining nominal codes. For these attributes, a link name “Domain Info” is provided and when clicked the link either returns to the top of the metadata file (clicked within the Morpho preview) or opens a browser window that says “No file exists at the address “/metacat” (clicked from html or pdf files). I have attached a file for example. I am not a coder and have not been able to figure out a way for the nominal/category codes to be listed directly in the metadata export files. I don’t like the thought of having to export all my work from Morpho into Metavist, so thought I’d check with KNB for a possible solution first.</p>
<p>Thanks for any guidance that you are able to provide.</p>
<p>Best,</p>
<p>Jayne</p>
<p>I looked at the html of page and it shows:<br /><td class="innercoleven" align="center" colspan="2"><a href="/metacat?action=read&qformat=export&sessionid=&docid=&displaymodule=attributedomain&entitytype=dataTable&entityindex=4&attributeindex=6"><b>Domain Info</b></a></td></p>
<p>The link looks like to use the metacat read action to read the attributedomain module. However, this link as imported html can't work since it can't have the complete metacat url. I also search the Metacat code and can't find it supporting to display the attribute domain.</p>
<p>I also looked at the eml xslt code. Here is the code to generate the link at the template attributenonnumericdomaincommon:<br /> <a><xsl:attribute name="href"><xsl:value-of select="$tripleURI"/><xsl:value-of select="$docid"/>&displaymodule=attributedomain&entitytype=<xsl:value-of select="$entitytype"/>&entityindex=<xsl:value-of select="$entityindex"/>&attributeindex=<xsl:value-of select="$attributeindex"/></xsl:attribute></p>
<p>It seems there are issues on the export feature of Morpho. So the link doesn't work. However, we have a way to work around the issues. First, you may save the package to a Metacat server from Morpho. Then you can open the package on the link from a browser. You may save the html file which shows up on your browser to replace the metadata.html on your exported package directory.</p>
<p>Here is the link of an eml on our KNB web site (which is our default Metacat server on Morpho):<br /><a class="external" href="https://knb.ecoinformatics.org/knb/metacat?action=read&amp;docid=autogen.2017031514432105092.2&amp;qformat=default&amp;displaymodule=printall">https://knb.ecoinformatics.org/knb/metacat?action=read&amp;docid=autogen.2017031514432105092.2&amp;qformat=default&amp;displaymodule=printall</a><br />When you click the link "Domain info", it will show up the information. After you save your eml into KNB, you can open your package by modifying the above link - replace "autogen.2017031514432105092.2" by your docid.</p>
<p>If you do want to use one html to show all the information, you may use this link:<br /><a class="external" href="https://knb.ecoinformatics.org/knb/metacat?action=read&amp;docid=autogen.2017031514432105092.2&amp;qformat=metacatui&amp;displaymodule=printall">https://knb.ecoinformatics.org/knb/metacat?action=read&amp;docid=autogen.2017031514432105092.2&amp;qformat=metacatui&amp;displaymodule=printall</a><br />As I said, when you try to open your eml, you need to replace the "autogen.2017031514432105092.2" by your docid.</p> Bug #6846 (New): Morpho hangs when exporting data packagehttps://projects.ecoinformatics.org/ecoinfo/issues/68462015-09-25T17:33:14ZBryce Mecummecum@nceas.ucsb.edu
<p>I was able to hang Morpho sometimes when exporting a newly-created data package.</p>
<p>Summary of my environment:<br />- OS: Mac OS X 10.10.5<br />- JRE: 1.8.0_51-b16<br />- Morpho: 1.11.0</p>
<p>Steps to reproduce:<br />- Open Morpho (Mac application form of it, launched via the Finder)<br />- Click File > Create new data package<br />- Enter information for 'Title', 'Owner', 'Contact', hitting next and accepting defaults for all other fields.<br />- Click Finish in the new data package wizard<br />- Save the data package using File > Save, and leave 'Save Locally" checked and click "Save" <br />- Attempt to export the package using File > Export, leave 'Export to a Directory' selected and click 'Export'<br />- Observe that the program is now hung.</p>
<p>The last step sometimes works and sometimes doesn't. I haven't determined what I'm doing that makes it hang sometimes and not other times.</p> Bug #6745 (New): Morpho main window doesn't look good in windows 8https://projects.ecoinformatics.org/ecoinfo/issues/67452015-05-04T17:15:30ZJing Taotao@nceas.ucsb.edu
<p>Margaret reported the morpho main window doesn't look good in windows 8. However, Jing didn't see the issue when he ran windows 8-1 in VirtualBox.</p> Bug #6702 (New): Import metadata indexing optionhttps://projects.ecoinformatics.org/ecoinfo/issues/67022015-03-27T21:59:28ZJessica Couturecouture@nceas.ucsb.edu
<p>When metadata is added to a package from an external file, Morpho creates a new identifier for it rather than incrementing the existing identifier. It would be great to have the option to either add the metadata to the existing series or create a new identifier when the file is brought in.</p> Bug #6701 (New): Entity descriptions can't be added outside wizardhttps://projects.ecoinformatics.org/ecoinfo/issues/67012015-03-27T21:56:52ZJessica Couturecouture@nceas.ucsb.edu
<p>I was trying to add entity descriptions after my tables had been imported and found that there is no way to go back and access this. Can this function be added so that this can be edited outside the initial data wizard has been closed?</p> Bug #6700 (New): Pub date fieldhttps://projects.ecoinformatics.org/ecoinfo/issues/67002015-03-27T21:54:54ZJessica Couturecouture@nceas.ucsb.edu
<p>The publication data defaults to the current date and there is no way to manually set this in Morpho. Can we have one added for datasets that had been published in the past?</p> Bug #6618 (New): Make production morpho work on Java 7https://projects.ecoinformatics.org/ecoinfo/issues/66182014-11-12T19:49:03ZJing Taotao@nceas.ucsb.edu
<p>Currently, the production Morpho only works on java 6. We should modify the izpack configuration to make it work in java 7.</p> Bug #6589 (New): common name in taxonomic coveragehttps://projects.ecoinformatics.org/ecoinfo/issues/65892014-08-28T20:02:32ZJessica Couturecouture@nceas.ucsb.edu
<p>When inputting taxonomic coverage manually there is an option to put common name but when assigning columns of names from a table, only the scientific classes are available. It would be helpful to be able to add common names from a table too.</p> Bug #6544 (New): Check the validity of the URL before letting someone save it.https://projects.ecoinformatics.org/ecoinfo/issues/65442014-04-30T00:14:43ZJing Taotao@nceas.ucsb.edu
<p>Corinna found that the morpho hangs if the metacat url is set incorrectly. But I can't reproduce it. If the url missed a "metacat" ( see using <a class="external" href="https://poseidon.limnology.wisc.edu/metacat">https://poseidon.limnology.wisc.edu/metacat</a> rather than <a class="external" href="https://poseidon.limnology.wisc.edu/metacat/metacat">https://poseidon.limnology.wisc.edu/metacat/metacat</a>), morpho is still responsive. But the login takes for ever.</p>
<p>No matter what behavior it is, we need to check the the validity of the URL.</p> Bug #4624 (New): local/network status icons sometimes (inconsistently) incorrecthttps://projects.ecoinformatics.org/ecoinfo/issues/46242009-12-11T01:44:18ZOliver Soongsoong@nceas.ucsb.edu
<p>A package that only exists remotely gets a network icon but no local icon. After a sync from remote->local, some packages get a local icon but no network icon. If I delete the local copy and close and re-open the package listing (forcing refresh), I see the correct network-only status icon. What's really odd is this happens inconsistently. It will happen to a package.revision consistently, but it may not happen to package.revision+1 or to a different package.</p> Bug #1098 (In Progress): REOT feedback: ability to freeze or lock columns while scrolling other c...https://projects.ecoinformatics.org/ecoinfo/issues/10982003-06-06T21:59:23ZMatthew Brookebrooke@nceas.ucsb.edu
<p>REOT feedback: ability to freeze or lock columns while scrolling other columns <br />sideways (like Excel split pane)</p>
<p>- for example, if there are many attributes in a given entity, which would <br />necessitate sideways scrolling, the first column or columns can be made <br />stationary so that they will always be visible while scrolling through the <br />remaining columns.</p> Bug #570 (In Progress): convert editor/DocFrame to use MorphoFramehttps://projects.ecoinformatics.org/ecoinfo/issues/5702002-08-22T18:27:48ZMatt Jonesjones@nceas.ucsb.edu
<p>The current editor package has a class DocFrame that extends JFrame. It needs<br />to be changed so that all editor windows are instances of MorphoFrame so that<br />they get all of the menus and toolbars. DocFrame is complex, so this might take<br />some redesign.</p> Bug #531 (New): use itislib to check taxon name spellinghttps://projects.ecoinformatics.org/ecoinfo/issues/5312002-06-13T15:36:00ZMatt Jonesjones@nceas.ucsb.edu
<p>When entering taxon names in the various fields, especially coverage, use the<br />itislib to llok up the names in ITIS to validate the spelling. If a taxon name<br />is not found in ITIS, notify the user so that they can correct the spelling.</p> Bug #326 (In Progress): Ability to repeat more than one fieldhttps://projects.ecoinformatics.org/ecoinfo/issues/3262001-11-09T18:52:34ZChristy Christyubowlc00@umail.ucsb.edu
<p>The repeat button to add more fields is good, but it would be useful to be able<br />to have the ability to add more than one set of fields at a time. This would be<br />especially applicable to describing attributes for a large table. Maybe a second<br />button next to the repeat button (?multiple repeat?) could pull up a screen that<br />asks how many fields to add?</p>