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From 11/03/2006 to 12/02/2006

12/02/2006

12:30 PM Bug #2686: Upgrade Liz's database and add reports
(In reply to comment #0)
DONE: Liz's database needs to be upgraded to current version (2.0.4).
DONE: A functionality ...
Michael Lee
12:29 PM Bug #2686 (Resolved): Upgrade Liz's database and add reports
Liz's database needs to be upgraded to current version (2.0.4).
A functionality to do this needs to be created.
...
Michael Lee
11:53 AM Bug #2589: Concepts as the basis for returning specimens and images.
We need to sort the records into two piles, the first being unambiguous records, and the second being the ambiguous o... Robert Peet
06:33 PM Bug #2589: Concepts as the basis for returning specimens and images.
Fixed. Check http://152.2.14.231/website/NCFloraTest/ before classes on the herbarium server get updated.
xianhua liu
11:17 AM Bug #2656: County lists should include ambiguous records
Ambiguous county occurrences will need to be flagged as such.
Concepts not mapped to Weakley concepts should have th...
Robert Peet
06:30 PM Bug #2656: County lists should include ambiguous records
It is realy hard to do concept-based search by county. First step is to search all names recorded in all data sources... xianhua liu
11:11 AM Bug #2643: Search for name synonymized by Weakley
We have fixed the first half.
The second half is harder. If the name searched for is not recognized by Weakley, b...
Robert Peet
06:09 PM Bug #2643: Search for name synonymized by Weakley
Fixed. Please check the result at http://152.2.14.231/website/NCFloraTest before querying classes on the herbarium s... xianhua liu
10:55 AM Bug #2582: 2A. Show parents as ambiguous members
Yes, please implement. Robert Peet
05:26 PM Bug #2582: 2A. Show parents as ambiguous members
The reason Acer rubrum is not included for CVS as ambiguous occurrence for Acer rubrum var. rubrum is that CVS follow... xianhua liu
10:52 AM Bug #2581: Children should occur in map of parent

The problem remains that children need to nest up into their parents. For example, all Acer rubrum var rubrum sec W...
Robert Peet
04:52 PM Bug #2581: Children should occur in map of parent
I checked the Hymenocallis occidentalis and Hymenocallis occidentalis var. occidentalis records and list their relate... xianhua liu
10:33 AM Bug #2584: 3. "Ambiguous" CVS and NCNHP records mapped differently from other ambiguous records
This bug requires only that the descriptive text adn help files be designed to provide appropriate explanation Robert Peet

11/28/2006

03:36 PM Bug #2642: QA: Keystroking efficiency additions
--------------STATUS UPDATE--------------------------------
all comments and this bug in general are resolved EXCEPT ...
Michael Lee
03:34 PM Bug #2642: QA: Keystroking efficiency additions
(In reply to comment #0)
> For Stem Data, it would be nice to hold down Ctl-type a number-release ctl and
> zoom to ...
Michael Lee
01:35 PM Bug #2642: QA: Keystroking efficiency additions
(In reply to comment #0)
> The Cover Data form is a bit tedious if you want to skip the module that you
> are in and ...
Michael Lee
01:34 PM Bug #2642: QA: Keystroking efficiency additions
(In reply to comment #2)
> backspace on the cover data form should go back to the previous entry in the
> current ent...
Michael Lee
08:03 AM Bug #2574: update species in old archive database from Forbes
Forbes put the database in the right place, this is done. Michael Lee
08:02 AM Bug #2565: allow multiple values for categorical fields
This has been implemented in the data entry database. Michael Lee

11/27/2006

01:43 PM Bug #2684 (New): Miscellaneous literature records for distribution
I think we should add a category of orange for miscellaneous literature records such as journal articles.
What th...
Robert Peet
11:04 AM Bug #2683 (In Progress): User submissions of new occurrence records
We should probably add a tool so that additions can be submitted by users. At a minimum we should provide a template ... Robert Peet

11/26/2006

03:28 PM Bug #2676: Print button on map pages does not work
fixed Robert Peet
11:52 AM Bug #2676: Print button on map pages does not work
fixed
Please make sure that the browser does not block the pop window. The printable page will show up in a popup wi...
xianhua liu
03:11 PM Bug #2680: Reformat dates on images
fixed Robert Peet
10:00 AM Bug #2680: Reformat dates on images
fixed xianhua liu
03:08 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
Looks good. Brassica nirgra now shows as NCSU.
I cannot fully test this feature until we have a species with differ...
Robert Peet
11:18 AM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
fixed:
1. querying function changed at the server side
2. sent email to Hinar to update the new classes
3. please ch...
xianhua liu

11/25/2006

03:25 PM Bug #2659: StratumPlot not linked to HerbData
These must be the plots that Joel uploaded. I am worried that he might have done a bunch of work on the plots after ... Robert Peet
07:46 AM Bug #2652: Netscape & Firefox do not generate maps properly
fixed Robert Peet
07:46 AM Bug #2652: Netscape & Firefox do not generate maps properly
Works now. Perhaps the moving of the sources tab solved the problem. I checked Netscape 8.1.2 and FireFox 1.0.1. Robert Peet
07:36 AM Bug #2633: Remove search button from search page
Well, it is still on the search page, but this is not a big deal and I am going to close this bug. Robert Peet
07:34 AM Bug #2617: 36. The Data Source tab
fixed Robert Peet
07:33 AM Bug #2680 (Closed): Reformat dates on images
Dates are hard to read on images. 19560831 should read 08-31-1956 as in the specimens. Robert Peet
07:29 AM Bug #2600: ID number on the specimen & images pages needs revision
Fixed Robert Peet
07:21 AM Bug #2679 (New): Port static NCSU records into SPECIFY
Migrate the static NCSU collection records into SPECIFY. This may require consultation with the SPECIFY staff at KU, ... Robert Peet
07:18 AM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
Much progress has been made.
One problem remains. Although NCSU collections in SPECIFY show up correctly tagged in ...
Robert Peet
07:06 AM Bug #2678 (Closed): Create tool for editing static database records of taxon occurrence
We need a tool for editing records in the static database of occurrences. For example, for a given record of occurren... Robert Peet
06:53 AM Bug #2597: Display of cultivated records should be optional
Below the check boxes for sources, draw a line and provide two boxes that allow selection of "Reported as cultivated"... Robert Peet

11/22/2006

01:02 PM Bug #2676 (Closed): Print button on map pages does not work
Print button on map pages does not work. The dogwood sping forever. This was reported to me by a user, and I had te... Robert Peet

11/18/2006

11:00 AM Bug #2617: 36. The Data Source tab
fixed Xianhua Liu
10:16 AM Bug #2633: Remove search button from search page
1. removed the left side menu bar to make more room for contents
2. added menus (about and Search) at the top frame
Xianhua Liu
10:13 AM Bug #2600: ID number on the specimen & images pages needs revision
fixed. see bug #2615 Xianhua Liu
09:22 AM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
1. changed the querying class at the server side
2. Changed the html pages (both colletions and images) to show serie...
Xianhua Liu

11/16/2006

02:40 PM Bug #2671: Finish Import DB: what to do with Main Menu visible tabs field?
and check for new fields that aren't on the table. If not there, it gets tricky, supply default value and write it a... Michael Lee
02:38 PM Bug #2671 (Resolved): Finish Import DB: what to do with Main Menu visible tabs field?
Allow CVS Entry database to link to another CVS Entry database and run through the data processing steps from inside ... Michael Lee

11/13/2006

01:19 PM Bug #2668 (New): Geocoordinates
We might have a student in the GIS certificate program take on a pilot project of georeferencing herbarium specimens ... Lisa Giencke
01:15 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
The Series field tells us which herbarium is in possession of a certain specimen. The table CatalogSeries shows what ... Lisa Giencke
01:08 PM Bug #2653: Removal of Databased Publications
This has been taken care of on our end. We have two pick lists now, Format (better name for it?) for Documents/Photog... Lisa Giencke
09:51 AM Bug #2667 (Resolved): Test Entry Tool processing of data vs. SAS
SAS can process data (the old way) and we should take some new data, export it to old style CVS text files, run them ... Michael Lee
09:48 AM Bug #2666 (New): ready for DBA: Project 76 (Elizabeth City, NC): 52 plots
this data needs to be processed and added to the (v2006) central archive
(Forbes writing:)
> For now, I would sugge...
Michael Lee
09:47 AM Bug #2665 (New): Ready for DBA process: Project 75 (Singletary Lake, NC): 52 plots
this data needs to be processed and added to the (v2006) central archive
(Forbes writing:)
> For now, I would sugge...
Michael Lee
09:46 AM Bug #2664 (Resolved): 5 errs remain: Project 74 (Cape Fear Riparian): 62 plots
this data needs to be processed and added to the (v2006) central archive Michael Lee
09:46 AM Bug #2663 (New): 2 errs left: + duplicates flagged: Project 73 (Mountain Bogs): 64 plots
this data needs to be processed and added to the (v2006) central archive Michael Lee
09:46 AM Bug #2662 (New): Unfolding: Project 64 (Brunswick Co. NC): 88 plots
this data needs to be processed and added to the (v2006) central archive Michael Lee
09:45 AM Bug #2661 (New): comments in XLS resolve: Project 63 (Francis Marion NF): 54 plots
this data needs to be processed and added to the (v2006) central archive Michael Lee
09:45 AM Bug #2660 (New): toArchiveDB: Project 62 (Windsor): 7 plots
this data needs to be processed and added to the (v2006) central archive Michael Lee

11/12/2006

01:30 PM Bug #2600: ID number on the specimen & images pages needs revision
changed id of images to the accession number. Need more information from Lisa about which field contains herbarium n... Xianhua Liu
01:11 PM Bug #2639: Inferred relationships too broad
Rule used here is (rule 24 in the rule document):
IF all children of A < B THEN A<=B
Original relationships:
Cary...
Xianhua Liu
12:48 PM Bug #2637: RAB records of nominal variety occurrences have incomplete name
I need to discuss with Bob and Alan Weakley about this one. Xianhua Liu
12:42 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
changed in "http://152.2.14.231/website/NCFloraTest/". Now collections show up for any herbarium collections. We need... Xianhua Liu
10:41 AM Bug #2574: update species in old archive database from Forbes
Joel has gotten back to us on Xyris and they are just an unknown sp in Xyris, not Floridian Bay. This bug is now squ... Michael Lee

11/11/2006

05:24 PM Bug #2574: update species in old archive database from Forbes
Fixed, except for getting back info from Joel as to which Xyris we should use. Michael Lee
04:15 PM Bug #2574: update species in old archive database from Forbes
Xyris on these plots has NOT been resolved, we are checking with Joel:
plotID
051-08-0244
051-08-0245
051-08-0250
f...
Michael Lee
04:29 PM Bug #2659 (Resolved): StratumPlot not linked to HerbData
The stratum plot records are not properly linked in from the data sources for recent projects. StratumPlot.StratumPl... Michael Lee

11/10/2006

03:16 PM Bug #2574: update species in old archive database from Forbes
Dicranella has been resolved. Michael Lee
02:42 PM Bug #2640: Identify USDA species without county distribution where other spp in genus have distribution
This PART of the bug is done, but there are still other related bugs that need addressing.
http://www.unc.edu/~mikele...
Michael Lee
02:31 PM Bug #2640: Identify USDA species without county distribution where other spp in genus have distribution
Note that the other bugs related to this one can be nicely viewed here:
http://bugzilla.ecoinformatics.org/showdepend...
Michael Lee
02:27 PM Bug #2658 (Closed): Split USDA records into concept-based and nominal sets
+++ This bug was initially created as a clone of Bug #2640 +++
Look at PERSBOR s.s. with all those records for NC,...
Michael Lee
02:26 PM Bug #2657 (Closed): Highlight species with too few counties and those with too many
+++ This bug was initially created as a clone of Bug #2640 +++
Look at PERSBOR s.s. with all those records for NC,...
Michael Lee

11/09/2006

09:18 AM Bug #2652: Netscape & Firefox do not generate maps properly
Firefox 1.5 has the same issues as Netscape Robert Peet
07:14 AM Bug #2652 (Closed): Netscape & Firefox do not generate maps properly
If you generate a map with Netscape 8.1, the map never quite finishes. You do get a map, but you also get an hourgla... Robert Peet
07:38 AM Bug #2590: "get missing taxa" search
resolved Robert Peet
07:00 AM Bug #2590: "get missing taxa" search
Bug resolved Robert Peet
07:10 PM Bug #2590: "get missing taxa" search
(N1-C1): w,y
(N2-C2): y,z
(N1-C1)+(N2-C2): w,y,z
N4-C4: w,y
(N1-C1)+(N2-C2)!=N4-C4
Xianhua Liu
07:36 AM Bug #2656 (New): County lists should include ambiguous records
Currently ambiguous occurrences are not so annotated in the county lists. Also, ambiguous taxa are not handled proper... Robert Peet
07:29 AM Bug #2655 (Closed): Download county list
You can search by county to get a list of county records, or records missing in a county, but we have no way to downl... Robert Peet
07:28 AM Bug #2654 (Closed): Selection box for sources for county records
When you search by county, it is not clear which sources of county records are being used to generate the list. We sh... Robert Peet
07:26 AM Bug #2653 (Closed): Removal of Databased Publications
There are two entries in our typology list in Specify that I think would be best to avoid in the atlas. These are Doc... Lisa Giencke
07:10 AM Bug #2651 (Closed): font issues with various browsers
If you create a map of a taxon with IE 6.0 or 7.0, everything looks fine. However, if you create a map with either N... Robert Peet
11:29 PM Bug #2624: 43. Paging through large families.
bug resolved Robert Peet
07:56 PM Bug #2624: 43. Paging through large families.
fixed Xianhua Liu
11:27 PM Bug #2605: 24. Search all counties in a state
bug resolved Robert Peet
07:25 PM Bug #2605: 24. Search all counties in a state
fixed
Xianhua Liu

11/06/2006

11:00 AM Bug #2645 (Closed): split USDA in the legend into into two labels
As a separate and contingent bug, Xianhua should split USDA in the legend
into into two labels and make any code cha...
Michael Lee
11:38 PM Bug #2643 (Closed): Search for name synonymized by Weakley
There is some unexplained inconsistency here, but in the end I see two types of errors resultsing from one situation.... Robert Peet
11:17 PM Bug #2637: RAB records of nominal variety occurrences have incomplete name
If you look at the RAB book you find a map for Ilex decidua and a map for Ilex decidua var. longipes. What RAB mean ... Robert Peet
11:06 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
Example = Brassica nigra, which is an NCSC specimen in the NCU SPecify database. The colelctiosn show up as specimen... Robert Peet
07:14 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
This bug refers to those NCSU specimens stored in the Specify database (a small number) and not to the larger number ... Robert Peet
11:01 PM Bug #2590: "get missing taxa" search
(N1-C1)+(N2-C2) = N4-C4 Robert Peet
10:56 PM Bug #2624: 43. Paging through large families.
that would solve the problem
Robert Peet
10:53 PM Bug #2619: Systematic error in determination of nominals
verified fixed Robert Peet
10:50 PM Bug #2627: Nominal concepts should not overlap Weakley concepts
verified fixed Robert Peet
10:42 PM Bug #2598: 17. Apostrophes
I assume this to be fixed - not sure where to check Robert Peet
10:41 PM Bug #2588: Specimen & Image lists should include infraspecific taxa
Verified fixed Robert Peet
10:38 PM Bug #2596: 15. Alphabetize synonyms
verified fixed Robert Peet
10:37 PM Bug #2634: Data source description errors
verified fixed Robert Peet
10:36 PM Bug #2616: 35. Click on county
verified fixed Robert Peet
10:34 PM Bug #2614: 33. Map source issues
verified fixed Robert Peet
10:33 PM Bug #2612: 31. Specimen data (fix typo)
verified fixed Robert Peet
10:32 PM Bug #2609: Erroneous assignment of ambiguous status
Note that Acer negundo Weakley < Acer negundo nominal.
1. Given this relationship, the NCSU specimens should not be ...
Robert Peet
06:10 PM Bug #2609: Erroneous assignment of ambiguous status
Rule: IF all children of A < or = some children of B THEN A<B
RKP: why not =OR<
Original Relationships:
1. Acer n...
Robert Peet
10:15 PM Bug #2607: 26. Misfunction on back-to-query button
verified fixed Robert Peet
10:11 PM Bug #2605: 24. Search all counties in a state
--all-- needs to move from the bottom of the list to the top Robert Peet
10:10 PM Bug #2601: Explanation of relationship symbols “>” and “<” reversed
ok, i think Robert Peet
10:06 PM Bug #2581: Children should occur in map of parent
Not yet fixed.
A search on Hymenocallis occidentalis has far fewer counties shaded than a seach on Hymenocallis occc...
Robert Peet
09:57 PM Bug #2613: 32. Trilliaceae (Missing)
verified fixed Robert Peet
09:55 PM Bug #2625: 44. Bug resolved
never a real bug here Robert Peet
09:55 PM Bug #2620: 39. Bug resolved
never a bug here Robert Peet
09:41 PM Bug #2600: ID number on the specimen & images pages needs revision
The problems seem to remain, particular with respect to images.
I will use examples based on Carya myristiciformis
...
Robert Peet
09:04 PM Bug #2639: Inferred relationships too broad
In the case of a species with varieties in Weakley, we must deduce the relationship of the Weakley species-level taxo... Robert Peet
08:54 PM Bug #2595: 14. The search box pick list seems to work inconsistently for species with infraspecific taxa.
bug verified fixed Robert Peet
08:39 PM Bug #2593: 12. On the Home page, the green color for "Other data sources" is not the same green
Verified fixed Robert Peet
08:38 PM Bug #2592: 11. The "Home" button should probably be changed to something like “About” ...
verified fixed Robert Peet
08:36 PM Bug #2591: 10. Image thumbnails use large files
verified fixed Robert Peet
08:33 PM Bug #2580: 1. Incorrect links to specimen images
Verified resolved Robert Peet
07:28 PM Bug #2597: Display of cultivated records should be optional
Xianhua reports this as fixed, but I cannot see anything changed (I checked on 152.2.14.231). I checked Carya illino... Robert Peet

11/05/2006

03:04 PM Bug #2581: Children should occur in map of parent
Whether or not children taxa are included depends on whether or not relationships are made between the parent and its... Xianhua Liu
02:54 PM Bug #2588: Specimen & Image lists should include infraspecific taxa
fixed. sent email to hinar asking update the server side classes. Xianhua Liu
11:47 AM Bug #2588: Specimen & Image lists should include infraspecific taxa
fixed in http://152.2.14.231/website/NCFloraTest. Now it can query by concept. Xianhua Liu
02:47 PM Bug #2619: Systematic error in determination of nominals
fixed. same as 2627. Xianhua Liu
02:45 PM Bug #2580: 1. Incorrect links to specimen images
changed javascript codes to herbarium site. sent email to hinar asking him to update java classes. Before hinar updat... Xianhua Liu
02:17 PM Bug #2627: Nominal concepts should not overlap Weakley concepts
fixed Xianhua Liu
01:36 PM Bug #2598: 17. Apostrophes
fxied Xianhua Liu
01:22 PM Bug #2637: RAB records of nominal variety occurrences have incomplete name
I do not understand about this one. For me there is nothing wrong about the map of Ilex longipes. We have Ilex longip... Xianhua Liu
01:13 PM Bug #2623: 42. TaxonProgress updates
I will work out this later with Lisa Xianhua Liu
01:11 PM Bug #2615: Failure to map WEWO and other non-NCU series in Specify
The reason NCSU collections do not show up in "Collections" is that they are not stored in Specify database as NCU sp... Xianhua Liu
01:04 PM Bug #2597: Display of cultivated records should be optional
fixed Xianhua Liu
12:54 PM Bug #2596: 15. Alphabetize synonyms
fixed Xianhua Liu
12:15 PM Bug #2590: "get missing taxa" search
Let's put an example here to make it clearer. Given one target county: C and 2 data sources: A and B.
For C's neigh...
Xianhua Liu
11:21 AM Bug #2634: Data source description errors
fixed Xianhua Liu
11:16 AM Bug #2624: 43. Paging through large families.
I am not quite sure about this requirement. My understanding is that when you click the "next" link, you wnat the nex... Xianhua Liu
11:11 AM Bug #2618: Server errors; incompatability with Windows 2000 OS
I will go back to this multi-platforms and multi-browsers soppurt issue later. It works fine on my Windows XP IMB des... Xianhua Liu
11:03 AM Bug #2616: 35. Click on county
dixed Xianhua Liu
10:10 AM Bug #2613: 32. Trilliaceae (Missing)
fixed Xianhua Liu
10:00 AM Bug #2609: Erroneous assignment of ambiguous status

Rule: IF all children of A < or = some children of B THEN A<B
Original Relationships:
1. Acer negundo var. negu...
Xianhua Liu
09:45 AM Bug #2605: 24. Search all counties in a state
Fixed in the testing site: 152.2.14.231/website/NCFloraTest
This fix involves changes in the java servlet classes, wh...
Xianhua Liu

11/04/2006

11:22 PM Bug #2640: Identify USDA species without county distribution where other spp in genus have distribution
(In reply to comment #1)
> Plants-NC matches the Plants-Search list (where in NC) exactly, except it
> contains the ...
Michael Lee
11:18 PM Bug #2640: Identify USDA species without county distribution where other spp in genus have distribution
(In reply to comment #1)
> > Plants-NC.txt = Results of request for a list of NC plants from PLANTS, done
> > today....
Michael Lee
11:16 PM Bug #2640: Identify USDA species without county distribution where other spp in genus have distribution
On Fri, 3 Nov 2006, Robert K. Peet wrote:
> Hi,
>
> The attached zip file contains 4 files.
>
> Plants-NC.txt = Resu...
Michael Lee
04:35 PM Bug #2642: QA: Keystroking efficiency additions
backspace on the cover data form should go back to the previous entry in the current entry is not filled in. Michael Lee
04:25 PM Bug #2642: QA: Keystroking efficiency additions
strata could also use some help in adding values when you press - in the base field, it shuold skip you to height so ... Michael Lee

11/03/2006

03:53 PM Bug #2642 (Resolved): QA: Keystroking efficiency additions
The Cover Data form is a bit tedious if you want to skip the module that you are in and get to the next. Perhaps Ctl... Michael Lee
 

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