Morpho: Issueshttps://projects.ecoinformatics.org/ecoinfo/https://projects.ecoinformatics.org/ecoinfo/ecoinfo/favicon.ico?14691340362008-08-26T22:33:40ZEcoinformatics Redmine
Redmine Bug #3476 (New): Search Result Selection list elements change when selectedhttps://projects.ecoinformatics.org/ecoinfo/issues/34762008-08-26T22:33:40ZRick Reevesreeves@nceas.ucsb.edu
<p>Intermittent software 'lockup' (approx 50 % of attempts results in the condition):</p>
<p>Occurs on Ubuntu 7.10 platform, JRE 1.5.0.13, Morpho 1.6.1 -</p>
<p>To re-create:</p>
<p>1) Start Morpho (from command line) and log in<br />2) Search Network and Local, All, search string: 'NCEAS 2017'<br />3) From search results, select (double click) DocumentID chadden.48.2 <br /> for viewing.<br />4) Here is what happens: When I select the item, it immediately changes<br /> to another item in the list (e.g., to the entry for DocID nceas.149.17)<br />5) When this happens, the list 'locks up', and selections can not be made.</p>
<p>Again, this only happens about 50 % of the time, and only on Ubuntu (so far).</p> Bug #3475 (New): Morpho data table search results do not displayhttps://projects.ecoinformatics.org/ecoinfo/issues/34752008-08-26T22:28:48ZRick Reevesreeves@nceas.ucsb.edu
<p>Intermittent software 'lockup' (approx 50 % of attempts results in the condition):</p>
<p>Occurs on Ubuntu 7.10 platform, JRE 1.5.0.13, Morpho 1.6.1 -</p>
<p>To re-create:</p>
<p>1) Start Morpho (from command line) and log in<br />2) Search Network and Local, All, search string: 'NCEAS 2017'<br />3) From search results, select (double click) DocumentID chadden.48.2 <br /> for viewing.<br />4) Here is what happens: I get the Warning message: <br /> 'Unable to display this data. However, an empty table with the column....' header... data is referenced by the URL ecogrid://knb/chadden.43.1' appears (note that this is different DocID than the one I selected).<br /> When I click 'OK', warning message disappears, Data Package appears, <br /> and THEN the screen freezes (Butterfly stops flapping)</p>
<p>Again, this only happens about 50 % of the time, and only on Ubuntu (so far).</p> Bug #2216 (New): Custom units not assigned to unit type category properlyhttps://projects.ecoinformatics.org/ecoinfo/issues/22162005-09-30T19:47:27ZWill Tyburczytyburczy@nceas.ucsb.edu
<p>If you create a custom unit that belongs to an existing unit type that contains<br />a space in the name ("Areal Mass Density", "Catalytic Activity", etc) the unit<br />does not subsequently get displayed as a member of that unit type in the NDTW.<br />Instead, when you try to select the unit again for another attribute, it is<br />listed as a unit in a separate unit type ("Arealmassdensity" instead of "Areal<br />Mass Density"). I think it's just a display issue, as the unit is listed in the<br />proper unit type if the DP is closed and re-opened.</p> Bug #2209 (New): Run the parser when a Save event is generatedhttps://projects.ecoinformatics.org/ecoinfo/issues/22092005-09-28T19:40:18ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>From Bug# 1622:</p>
<p>------- Additional Comment <a class="issue tracker-1 status-3 priority-2 priority-default closed" title="Bug: MCAT won't build under IRIX with Oracle 8.0.5 (Resolved)" href="https://projects.ecoinformatics.org/ecoinfo/issues/6">#6</a> From Matt Jones 2004-07-23 08:54 -------</p>
<p>And Sid, in fixing this I think what we should be doing is running the eml<br />parser on the document when a Save event is detected. If the validation fails,<br />we should at a minimum provide an understandable list of the places where more<br />metadata is needed, but even better guide them to those locations so that they<br />can fix them quickly and easily.</p> Bug #2199 (New): Info in additionalMedata tags not displayed when viewing data packagehttps://projects.ecoinformatics.org/ecoinfo/issues/21992005-09-16T20:12:06ZWill Tyburczytyburczy@nceas.ucsb.edu
<p>When viewing a data package, the information inside "AdditionalMetadata" tags is<br />not displayed in the metadata.</p> Bug #2070 (New): Problem with 'individualName' and 'distribution' fields in tree editorhttps://projects.ecoinformatics.org/ecoinfo/issues/20702005-04-20T19:07:23ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>I created a dp, entering only the required info in the wizard. Then I went to<br />the tree editor and entered info in the 'methods' module in these fields:<br />methodStep/description, methodStep/software/title, methodStep/software/creator,<br />methodStep/software/implementation, and methodStep/software/version. In<br />methodStep/software/creator, I only input info in the "individualname" field. I<br />clicked OK in the tree editor and got the message "The saved document is not<br />valid EML2....". I saved the dp and parsed it on<br /><a class="external" href="http://knb.ecoinformatics.org/emlparser/parse">http://knb.ecoinformatics.org/emlparser/parse</a> and got this message:</p>
<p>XML-Schema Errors Found<br />The following errors were found:<br />cvc-complex-type.2.3: Element 'individualName' must have no character<br />[children], because the types content type is element-only.</p>
<p>When I looked at the dp, I noticed that there was no info under "Individual:" <br />(under Methods Info/Software/Author(s)) and "Distribution" (under Methods<br />Info/Software/Implementation Info) even though I had input some info in these<br />fields in the tree editor.</p>
<p>When I deleted the "individualName" field in the tree editor and provided info<br />for the "organizationName" field, and clicked on OK, I got the invalid EML2<br />message again. When I parsed the dp, the error message was related to the<br />distribution field this time:</p>
<p>XML-Schema Errors Found<br />The following errors were found:<br />cvc-complex-type.2.3: Element 'distribution' must have no character [children],<br />because the types content type is element-only.</p>
<p>I also got the problem mentioned above about the 'individualName' field when<br />using the 'relatedProject' field (in the 'project' module).</p> Bug #1983 (New): allow morpho to detect online data and import ithttps://projects.ecoinformatics.org/ecoinfo/issues/19832005-02-18T01:42:19ZMatt Jonesjones@nceas.ucsb.edu
<p>In several situations (such as Bug# 1982) an EML description might have a URL<br />pointing at an actual data file that is referenced in the top level EML<br />distribution section. When this occurs, Morpho should be able to import the<br />data from the URL, asking for the entity and attribute metadata, and move the<br />distribution reference to the entity distribution section.</p>
<p>If the data are stored in Metacat, then they need not be uploaded again, but<br />rather a simple reference to the Metacat id needs to be made to associate the<br />new metadata with the existing data.</p>
<p>If the data are at some other online URL, the data may need to be stored in<br />metacat (but only after the user has confirmed the operation).</p> Bug #1823 (New): Morpho Editor and saving network data packageshttps://projects.ecoinformatics.org/ecoinfo/issues/18232004-12-10T22:01:14ZVeronique Connollyconnolly@nceas.ucsb.edu
<p>When a network data package is opened, and you open the Morpho Editor, and then<br />click OK (without even making any modification), sometimes you get an error<br />message (see below), sometimes you don’t.</p>
<p>“The saved document is not a valid EML2 for some reason. You can save it<br />locally and fix the problem later, but you will be unable to submit it to the<br />network storage system. Do you want to Continue Exiting the Editor?”)</p>
<p>Different things will happen when you try saving the package either locally or<br />on the network, depending on whether you got the error message in the Editor or not.</p>
<p>I tested a few datasets from the network and here are the two different chains<br />of events that happened:</p>
<p>1) For datasets nrs.301.1, nrs.300.1, obfs.149.1, and nceas.19.11: <br />a) Go to editor and click OK: no message.<br />b) Click on the save button: the Save Locally box is checked and the Save to<br />Network box is empty but can be checked (before I opened the Editor, if I tried<br />saving, the Save to Network option was not available). Different things happen<br />depending on what boxes you check:<br />- if both boxes are checked, no icons appear in the grey right corner of the<br />dp, and the dp doesn’t get saved either locally nor on the network (see comment<br /><a class="issue tracker-1 status-3 priority-2 priority-default closed" title="Bug: attribute editing for EMPTY elements doesn't work (Resolved)" href="https://projects.ecoinformatics.org/ecoinfo/issues/2">#2</a> of bug <a class="issue tracker-1 status-1 priority-2 priority-default" title="Bug: Local save doesnt work sometimes. (New)" href="https://projects.ecoinformatics.org/ecoinfo/issues/1569">#1569</a>).<br />- if only the Save to Network box is checked, the dp doesn’t get saved, which in<br />theory is what we want to happen, but we don’t get an error message saying that<br />it can’t be saved.<br />- if only the Save Locally button is checked, the local icon appears and the dp<br />is saved locally.<br />c) After saving the dp locally, if you try synchronizing it, an error message<br />appears: <br />“A conflict has been found in one or more of the identifiers in your package. <br />It is possible that you or someone else has made a change on the server that has<br />not been reflected on your local copy. If you proceed the identifier for this<br />package will be changed. Are you sure you want to proceed with the upload?”</p>
<p>If you click Yes, the dp’s docid is changed and the dp is saved both locally and<br />on the network. Saving to the network SHOULD NOT be allowed.</p>
<p>2) For datasets ces_dataset.160.1, .114.1, .115.1, .116.1, .117.1, and nrs.10.3,<br />.12.3, .114.3, .128.5<br />a) Go to editor and click OK: you get an error message (see first part of this<br />bug report). Click Yes to message.<br />b) When you try saving the same things happen as in 1b (see above), except for<br />the local save: after you click Yes for a Local save, the DP closes.<br />c) When you reopen the locally saved DP and try synchronizing it, the same<br />message as in 1c (above) appears, but when you click Yes, you get another error<br />message (see below) and Morpho freezes (the butterfly flaps its wings forever; I<br />waited several minutes and shut down from the Task Manager).</p>
<p><?xml version=’1.0”?><br /><error><br />cvc-complex-type.2.4.b: The content of element ‘description” is not complete. <br />One of “{“”:section, “”:para}’ is expected.</p>
<p>Sorry for the long explanation. I am aware that there might be more than one<br />problem involved and I don’t know if there is any connection between the Editor<br />and saving a package, but I thought it would be best to describe the series of<br />events in one bug report rather than break it up into several reports.</p> Bug #1807 (New): Stop/pause search feature requesthttps://projects.ecoinformatics.org/ecoinfo/issues/18072004-12-03T20:59:19ZAndrea Andreachadden@nceas.ucsb.edu
<p>Users must wait for a search to be fully completed before being able to open a <br />data package. This can take a long time, depending on the search parameters. It <br />can be frustrating to have to wait for the search to be completed when the dp <br />you want to open is already listed in the search results. It would be great to <br />have a "Stop Search" feature, much like that provided when searching for an <br />email in Outlook, or for a file on a computer.</p> Bug #1702 (New): spatial search is not savedhttps://projects.ecoinformatics.org/ecoinfo/issues/17022004-09-28T23:47:07ZChad Berkleyberkley@nceas.ucsb.edu
<p>when you revise a search that you have just performed, the spatial bounding box<br />is reset to the default instead of being left in the state that you left it. <br />When opening a saved search or revising an existing search, the bounding box<br />should retain its position.</p> Bug #1667 (New): Couldn't send data file to metacat using a download packagehttps://projects.ecoinformatics.org/ecoinfo/issues/16672004-09-02T01:26:33ZJing Taotao@nceas.ucsb.edu
<p>When I use morpho to copy a eml2 package from metacat1 to metacat2 and found<br />this problem.</p>
<p>I have a eml2 document - jones.1.3 which has a online data jones.2.1(use ecogrid<br />protocol). I want copy it from metacat1 to metact2(both eml document and data<br />file). First, I used morpho to point to metacat1 and used synchronize function<br />to download it. I got both jones.1.3 (eml document) and jones.2.1(data file).</p>
<p>Then I changed morpho to point metacat2. No matter I used save or synchronize<br />function, I only can upload jones.1.3(eml document) to metacat2. But I couldn't<br />upload jones.2.1 even it use ecogrid protocol in url.</p>
<p>If we can both upload eml doucment and data file(use ecogrid protocol) to<br />metacat, it will be better.</p> Bug #1582 (New): No Error Msg displayed when network update of datapackage failed due to access c...https://projects.ecoinformatics.org/ecoinfo/issues/15822004-05-27T21:00:01ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>Reported by Andrea:</p>
<p>A data package with data table was opened using Morpho. (bowles.436.5)<br />This was done after doing login in Morpho using Andrea's ID. The document has <br />read access for public and all for uid=bowles,o=nceas only.</p>
<p>Then the data table is deleted and the document is saved locally and over the <br />network. No new screen is opened. So user still sees bowles.436.5 instead of <br />bowles.436.6</p>
<p>There was a 436.6 in the data directory on the local file system. But the <br />metacat server still had 436.5</p>
<p>So Metacat didn't allow update of document due to access control. But no error <br />message was displayed to the user. Another issue is when network update fails, <br />should the local copy which was created successfully should be kept or deleted. <br />If it is kept, then shouldn't the DP display window update to show the new <br />version of the document? i.e. 436.6 instead of 436.5</p> Bug #1569 (New): Local save doesnt work sometimes.https://projects.ecoinformatics.org/ecoinfo/issues/15692004-05-17T23:06:30ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>This was reported by Nicole Kaplan <<a class="email" href="mailto:nicole.kaplan@colostate.edu">nicole.kaplan@colostate.edu</a>></p>
<p>Nicole's comments:<br />The "local" save for data packages does not always work and unless you<br />also saved to network too, your changes are lost. It is unclear what causes<br />this, but if it doesn't save it the first time locally, it never is able it<br />save it on subsequent edits.</p>
<p>My Comments:<br />If this is happening then it might be a bug. Though, I am not able to reproduce <br />it. <br />Maybe the document is just not showing up in the open/search box for some <br />reason. How do you figure out that the document has been saved locally. Is an <br />ID specified on top of the window that opens up after you save a datapackage?</p>
<p>Also it might be because of some kind of text that you are trying to enter that <br />is messing up the save - like pasting the text from Microsoft files.</p> Bug #1568 (New): Certain dialogues in DPW lock up the helphttps://projects.ecoinformatics.org/ecoinfo/issues/15682004-05-17T22:44:10ZSaurabh Gargsgarg@nceas.ucsb.edu
<p>This was reported by Nicole Kaplan <<a class="email" href="mailto:nicole.kaplan@colostate.edu">nicole.kaplan@colostate.edu</a>></p>
<p>These dialogues are the child windows of DPW which are called from buttons like <br />Add, Edit etc. Help window should probably be made independent of all the other <br />windows in Morpho.</p> Bug #1559 (New): Morpho 1.5.1 Help: 5 problems with search featurehttps://projects.ecoinformatics.org/ecoinfo/issues/15592004-05-12T19:52:50ZAndrea Andreachadden@nceas.ucsb.edu
<p>1. When I do a search for “User Guide” using the Search feature within Morpho <br />help, pages from the old version of the user guide come up in the search <br />results (i.e. older files in CVS that have been updated). Only the most <br />current pages of the user guide should show up in the search.</p>
<p>2. When searching in Morpho Help, a few things are unclear about the search <br />results. It is unclear what the numbering in the search results is for (there <br />is a 10, 3, 2, 5, 1 to the left of the search results). Also, there’s no <br />explanation of the red ball symbology that appears to the left of the search <br />results.</p>
<p>3. In the search feature within Morpho Help, when I type in “user guide” (or <br />user+guide), results appear that highlight only the word “user”, when I only <br />want pages where the entire phrase “user guide” appears.</p>
<p>4. In the search feature within Morpho Help, almost all of the names of the <br />results are non-descript, and simply called “Knowledge Network for <br />Biocomplexity”. When there are 15 results with the same name it is frustrating <br />to have to click on each one until you find what you want, therefore the names <br />of the search results should be more descriptive.</p>
<p>5. In Morpho Help, after searching for a word or phrase (like “user guide”), <br />the words remain highlighted on certain page(s) in the user guide (long after <br />the search took place). There is no evident way (such as clicking on the <br />highlighted area) to deselect the phrase or word on a page.</p>