Timeline


and

Oct 19, 2010:

7:00 PM Changeset [644] by tim.te.beek@…
Add TODO for indexes
4:11 PM Ticket #1 (JSpecView applet keeps using CPU after first spectrum selection) created by tim.te.beek@…
Due to repeated invocation of jspecview.common.JSVPanel.drawPlot(), …
3:50 PM WikiStart edited by tim.te.beek@…
(diff)

Oct 15, 2010:

2:38 PM WikiStart edited by tim.te.beek@…
(diff)
10:54 AM Changeset [643] by tim.te.beek@…
Do not ignore return value of file.delete() for temp file
10:53 AM Changeset [642] by tim.te.beek@…
Set clone() for bincounts int[], to eliminate external mutability

Oct 14, 2010:

4:50 PM Changeset [641] by tim.te.beek@…
2nd try to enable findbugs
3:40 PM Changeset [640] by tim.te.beek@…
3:40 PM Changeset [639] by tim.te.beek@…
2:45 PM Changeset [638] by tim.te.beek@…
Provide a name for speed-test module
2:44 PM Changeset [637] by tim.te.beek@…
Disable FindBugs? & log reason
2:39 PM Changeset [636] by tim.te.beek@…
Fix JavaDoc?
2:38 PM Changeset [635] by tim.te.beek@…
Load & link spectrum automatically
2:34 PM Changeset [634] by tim.te.beek@…
Fix JavaDoc?
2:06 PM Changeset [633] by tim.te.beek@…
Add FIXME notice to externally licensed file
2:01 PM Changeset [632] by tim.te.beek@…
Enable FindBugs? to see if it works
1:20 PM Changeset [631] by tim.te.beek@…
Added two commented out broken implementations of loading labels & …
1:18 PM Changeset [630] by tim.te.beek@…
Removed Builder class: No longer needed
1:18 PM Changeset [629] by tim.te.beek@…
Convert record to map once, instead of repeated split & count …
10:44 AM Changeset [628] by tim.te.beek@…
Detect & handle duplicates for mol files & spectra adding

Oct 13, 2010:

1:18 PM Changeset [627] by tim.te.beek@…
Clearly state script value will be replaced
1:11 PM Changeset [626] by tim.te.beek@…
Store first spectrum reference instead of recreating it
1:09 PM Changeset [625] by tim.te.beek@…
Log reasons for disabled tests
1:06 PM Changeset [624] by tim.te.beek@…
Disable complex wildcard testing
12:50 PM Changeset [623] by tim.te.beek@…
Add test (and executable!) to test compoundpage display for compound …
12:48 PM Changeset [622] by tim.te.beek@…
Only float jmol to the right if there are spectra
12:38 PM Changeset [621] by tim.te.beek@…
Remove individual visibility setting for members of JSpecViewPanel, as …
12:24 PM Changeset [620] by tim.te.beek@…
Rename DAOs to emphasize distinction with interfaces
12:21 PM Changeset [619] by tim.te.beek@…
Use DAO interfaces instead of implementing classes
12:20 PM Changeset [618] by tim.te.beek@…
Use DAO interfaces instead of implementing classes
12:16 PM Changeset [617] by tim.te.beek@…
Create panels for JSpecView & Jmol applets Move JSpecView & Jmol …

Oct 12, 2010:

4:56 PM Changeset [616] by tim.te.beek@…
Added two TODOs
4:23 PM Changeset [615] by tim.te.beek@…
Do not display ChemClass? when null Do not display jspecview applet or …
4:20 PM Changeset [614] by tim.te.beek@…
- Only delete compound if found - Assert ElementCounts? is not empty - …
4:19 PM Changeset [613] by tim.te.beek@…
Throw legible FNFE when mol file is missing
3:47 PM Changeset [612] by tim.te.beek@…
Added test for CompoundPage? display for compound without spectra
3:46 PM Changeset [611] by tim.te.beek@…
Make molfile field @NotEmpty?
2:34 PM Changeset [610] by tim.te.beek@…
2:34 PM Changeset [609] by tim.te.beek@…

Oct 8, 2010:

12:59 PM Changeset [608] by tim.te.beek@…
Load jdx spectrum using packaged resource & attribute modifier instead …
12:01 PM Changeset [607] by tim.te.beek@…
Disable test while bitwise is disabled
9:47 AM Changeset [606] by tim.te.beek@…
Use default Hibernate PostgreSQL dialect
9:47 AM Changeset [605] by tim.te.beek@…
@Ignore tests that use native bitwise search
9:42 AM Changeset [604] by tim.te.beek@…
No longer store BitSets? as bits(200) in PostgreSQL Deprecate …

Oct 7, 2010:

6:28 PM Changeset [603] by tim.te.beek@…
Removed unused fields COUNTS_SUBSPEC_SCORE etc
6:27 PM Changeset [602] by tim.te.beek@…
Also generate Compound
6:19 PM Changeset [601] by tim.te.beek@…
Added additional debug log statement
6:19 PM Changeset [600] by tim.te.beek@…
Added additional debug log statements
4:59 PM Changeset [599] by tim.te.beek@…
Added searchBitwiseNatively
4:59 PM Changeset [598] by tim.te.beek@…
Suppress unused warnings
4:57 PM Changeset [597] by tim.te.beek@…
Add asserts for the number of hits that should be returned from normal …
4:53 PM Changeset [596] by tim.te.beek@…
Use mask.set(startBin, endBin, true); to set bits in a range instead …
4:46 PM Changeset [595] by tim.te.beek@…
Limit @SuppressWarnings? scope
4:12 PM Changeset [594] by tim.te.beek@…
Only print first 5
4:07 PM Changeset [593] by tim.te.beek@…
Count using i += 50
3:53 PM Changeset [592] by tim.te.beek@…
Complete documentation
3:48 PM Changeset [591] by tim.te.beek@…
Renamed method & add binsize as argument
3:29 PM Changeset [590] by tim.te.beek@…
Add initial Native bit operation search
3:06 PM Changeset [589] by tim.te.beek@…
Extract public static methods toString & toBitSet to translate between …
2:09 PM Changeset [588] by tim.te.beek@…
Split up BitSet? definitions for clarity
11:52 AM Changeset [587] by tim.te.beek@…
Remove @runwith stuff, as it isn't a @Test Directly store Spectra …
11:24 AM Changeset [586] by tim.te.beek@…
Do not clone return value of getBinBits, as it itself is already a …
11:24 AM Changeset [585] by tim.te.beek@…
Return a clone of binBits upon getBinBits
11:17 AM Changeset [584] by tim.te.beek@…
Remove fields solvent, nmrType, experimentType & compound from …
10:44 AM Changeset [583] by tim.te.beek@…
Run installer before parser test

Oct 6, 2010:

4:35 PM Changeset [582] by tim.te.beek@…
Use association querying on BinnedSpectrum?.Spectrum.Solvent/NMRType/ExpType
4:32 PM Changeset [581] by tim.te.beek@…
Log warning on missing JDX file
4:30 PM Changeset [580] by tim.te.beek@…
Log IOException on failure to read SDF file
4:06 PM Changeset [579] by tim.te.beek@…
Delete shaded xml files
4:04 PM Changeset [578] by tim.te.beek@…
4:03 PM Changeset [577] by tim.te.beek@…
Move usertype package to mapping Update hibernate.cfgs accordingly
3:53 PM Changeset [576] by tim.te.beek@…
Suppress deprecation warnings as there's no alternative hint yet till …
3:52 PM Changeset [575] by tim.te.beek@…
Use protected static fields from BitSetUserType? in MyEPSQLDialect
3:51 PM Changeset [574] by tim.te.beek@…
Add asserts that first hits should have no differences
3:47 PM Changeset [573] by tim.te.beek@…
Store number of differences in SpectrumHit? as int instead of double
2:37 PM Changeset [572] by tim.te.beek@…
Add popup jar (33 KB) to remove related errors
2:30 PM Changeset [571] by tim.te.beek@…
Load first Spectrum on page load
1:36 PM Changeset [570] by tim.te.beek@…
Extract Compound.Image & Compound.Link to separate classes
1:26 PM Changeset [569] by tim.te.beek@…
Extract composeLoadSpectrumScript in preparation of Load spectrum on …
1:12 PM Changeset [568] by tim.te.beek@…
Reduce visibility of static method
12:58 PM Changeset [567] by tim.te.beek@…
Remove Suffix from setJmolId method invocation append("jmolApplet") to …

Oct 5, 2010:

4:58 PM Changeset [566] by tim.te.beek@…
Reintroduce setOutputMarkupId in replaced & replacement panels
3:45 PM Changeset [565] by tim.te.beek@…
Add TODO for loading Spectrum
3:36 PM Changeset [564] by tim.te.beek@…
Flip Spectrum.Solvent order to alter sort order on webpage
3:34 PM Changeset [563] by tim.te.beek@…
Make Spectrum Comparable to Spectrum Store Spectra in a SortedSet? to …
11:02 AM Changeset [562] by tim.te.beek@…
Add TODO for zero-padding
10:59 AM Changeset [561] by tim.te.beek@…
Renamed TBSS to TBSSS
10:58 AM Changeset [560] by tim.te.beek@…
Add test speed for counts Add easy-toggle to run installer & generator …
9:37 AM Changeset [559] by tim.te.beek@…
Fix import Types ambiguity

Oct 4, 2010:

10:29 PM Changeset [558] by tim.te.beek@…
Add Type mapping to BitSet?
10:28 PM Changeset [557] by tim.te.beek@…
Add MyExtendedPostgreSQLDialect
4:42 PM Changeset [556] by tim.te.beek@…
Added TODO for counts test
4:32 PM Changeset [555] by tim.te.beek@…
Add method to test countByChemClass
4:29 PM Changeset [554] by tim.te.beek@…
Correctly cast & return Long values from (row)Count Projections
4:06 PM Changeset [553] by tim.te.beek@…
Remove padding setType to varbit
4:00 PM Changeset [552] by tim.te.beek@…
Do not cast Long to Integer
3:51 PM Changeset [551] by tim.te.beek@…
Remove unnecessary @Setter
3:33 PM Changeset [550] by tim.te.beek@…
Replaced @Data with getter & setter Renamed BitSetMapper? to BitSetUserType?
3:32 PM Changeset [549] by tim.te.beek@…
Print done
3:31 PM Changeset [548] by tim.te.beek@…
Update Hibernate versions
3:28 PM Changeset [547] by tim.te.beek@…
Recreate lucene index dir after install to remove a warning
10:29 AM Changeset [546] by tim.te.beek@…
Use actual Object equals again now Lazy Fetching is disabled again in …
10:23 AM Changeset [545] by tim.te.beek@…
Remove lazy fetching: Gives a 4 second boost from 89 to 85 seconds, …
9:33 AM Changeset [544] by tim.te.beek@…
Compare spectrumhits based on toString implementation
8:50 AM Changeset [543] by tim.te.beek@…
Fix JavaDoc? related imports
7:49 AM Changeset [542] by tim.te.beek@…
Added untested experimental BitSetMapper?
7:47 AM Changeset [541] by tim.te.beek@…
Added (fetch=FetchType?.LAZY)TODO Test performance …

Oct 1, 2010:

10:44 PM Changeset [540] by tim.te.beek@…
Make container a field
10:39 PM Changeset [539] by tim.te.beek@…
Organize imports 100% width on CompoundsDataTablePanel? Move <h2>Search …
10:35 PM Changeset [538] by tim.te.beek@…
log.debug number of returned MassHits?

Sep 30, 2010:

4:18 PM Changeset [537] by tim.te.beek@…
Removed logger, which shouldnt have been committed in the first place
4:17 PM Changeset [536] by tim.te.beek@…
Move adduct label back to MassSearchPanel? Correctly paginate mass & …
3:50 PM Changeset [535] by tim.te.beek@…
Added null check for Compound
3:43 PM Changeset [534] by tim.te.beek@…
Renamed fields to mirror SpectrumSearchPanel?
3:33 PM Changeset [533] by tim.te.beek@…
Harmonize likewise code between TablePanels?
3:26 PM Changeset [532] by tim.te.beek@…
Move adduct label to MassHitTablePanel? using constructor argument
2:30 PM Changeset [531] by frank_van_zimmeren@…
Renamed JMOL_APPLET_ID to JMOL_APPLET_ID_SUFFIX and changed value
2:18 PM Changeset [530] by tim.te.beek@…
Do not Override detach() with empty implementation
1:38 PM Changeset [529] by tim.te.beek@…
Initially hide SpectrumHitTablePanel? on SpectrumSearchPanel?
1:09 PM Changeset [528] by frank_van_zimmeren@…
Fixed error that occurred when clicking on download button without …
12:41 PM Changeset [527] by tim.te.beek@…
remove readonly instrumentation on @Transactional as there's no speed …
12:15 PM Changeset [526] by tim.te.beek@…
Added altered SpectrumSearch? test that searches for the first 10 spectra
12:00 PM Changeset [525] by tim.te.beek@…
Removed shadowing conflict by renaming second StringBuilder? variable …
11:57 AM Changeset [524] by tim.te.beek@…
Use IndicatingAjaxButton? instead of AjaxSubmitLink?
10:59 AM Changeset [523] by tim.te.beek@…
Added List<T> get(int first, int count) to GenericHibernateDAO to …

Sep 28, 2010:

5:04 PM Changeset [522] by tim.te.beek@…
Oops: only generate 100K binnedSpectra instead of 5 million
4:50 PM Changeset [521] by tim.te.beek@…
Added initial generator using MersenneTwisterFast?
3:41 PM Changeset [520] by tim.te.beek@…
Use @Override @SuppressWarnings?("unchecked") public T find(Long …
3:13 PM Changeset [519] by frank_van_zimmeren@…
Removed unused JMol jar
2:51 PM Changeset [518] by frank_van_zimmeren@…
JSpecView to JMol callback now works, so both callbacks now work
9:58 AM Changeset [517] by tim.te.beek@…
Disable FindBugs? due to OutOfMemory? Exception
9:20 AM Changeset [516] by frank_van_zimmeren@…
JMol to JSpecView pick callback now works

Sep 27, 2010:

4:57 PM Changeset [515] by frank_van_zimmeren@…
Load JMol applet using javascript supplied with JMol
4:50 PM Changeset [514] by tim.te.beek@…
Added Stub class with TODO
4:42 PM Changeset [513] by tim.te.beek@…
Add speed test base
2:36 PM Changeset [512] by tim.te.beek@…
load .mol file in JMol Applet after page is loaded
9:28 AM Changeset [511] by tim.te.beek@…
Wrap DownloadPage? in ModalWindow? to circumvent broken back-button on …
8:40 AM Changeset [510] by tim.te.beek@…
Use clone to retrieve binCounts to avoid externally mutable reference …
8:35 AM Changeset [509] by tim.te.beek@…
Do not ignore result of FileInputStream?.read(byte[])

Sep 24, 2010:

5:32 PM Changeset [508] by tim.te.beek@…
Remove test with dash commented out: Not the source of the problem
3:19 PM Changeset [507] by tim.te.beek@…
Add test that searches for inchikey
3:19 PM Changeset [506] by tim.te.beek@…
Do not tokenize identifiers
1:41 PM Changeset [505] by tim.te.beek@…
Move Lucene indices one folder up
1:13 PM Changeset [504] by tim.te.beek@…
Use varargs as arg to main
1:07 PM Changeset [503] by tim.te.beek@…
Dependency manage metidb-parser
12:39 PM Changeset [502] by tim.te.beek@…
Make id protected instead of private
12:10 PM Changeset [501] by tim.te.beek@…
wicket.version++
11:19 AM Changeset [500] by tim.te.beek@…
Add JBoss repo to parent Update hibernate search version
11:03 AM Changeset [499] by tim.te.beek@…
Switch test case to known problematic instance

Sep 23, 2010:

4:38 PM Changeset [498] by tim.te.beek@…
Print hits just before returning from find(...)
4:21 PM Changeset [497] by tim.te.beek@…
Replace ’ with ' in names
4:19 PM Changeset [496] by tim.te.beek@…
Typo
3:15 PM Changeset [495] by tim.te.beek@…
Add help link for Query parser syntax
3:03 PM Changeset [494] by tim.te.beek@…
Add additional test case to replicate Velitchka's wildcard problems
3:03 PM Changeset [493] by tim.te.beek@…
Upgrade lucene to 2.9.3
2:08 PM Changeset [492] by tim.te.beek@…
Move refine button to MassSearchPanel? (where adducts label & …
12:47 PM Changeset [491] by tim.te.beek@…
Alter check condition before download
12:29 PM Changeset [490] by tim.te.beek@…
Comment out resource polling & remove associated TODO
12:27 PM Changeset [489] by tim.te.beek@…
remove <? extends ...> Limit scope of @SuppressWarnings?
12:24 PM Changeset [488] by tim.te.beek@…
Move @SuppressWarnings? to limit scope
11:37 AM Changeset [487] by tim.te.beek@…
Merged RefiningSearchPanel? & SpectrumSearchPanel? back into one
11:36 AM Changeset [486] by tim.te.beek@…
Added FIXME about thrown IAE
11:36 AM Changeset [485] by tim.te.beek@…
Actually refine using counts instead of copy-past-error …

Sep 22, 2010:

6:40 PM Changeset [484] by tim.te.beek@…
Similar <h2>Search results</h2>'s
6:37 PM Changeset [483] by tim.te.beek@…
Place a header above Spectrum Search results
6:36 PM Changeset [482] by tim.te.beek@…
Make refinement link a button and move to top Hide buttons upon …
6:04 PM Changeset [481] by tim.te.beek@…
Suppress PMD warning on documented if-if
6:01 PM Changeset [480] by tim.te.beek@…
Supply proper null models to prevent NPE
4:11 PM Changeset [479] by tim.te.beek@…
Spec package moved
4:08 PM Changeset [478] by tim.te.beek@…
Extract ShiftsModel? as separate class
4:02 PM Changeset [477] by tim.te.beek@…
Include call to WicketTester?
3:14 PM Changeset [476] by tim.te.beek@…
Mirror extraction of defaultSolvent field
2:43 PM Changeset [475] by tim.te.beek@…
Extract refining search to separate package
2:38 PM Changeset [474] by tim.te.beek@…
Added Proof of Concept combined Mass & Spec search UI
2:37 PM Changeset [473] by tim.te.beek@…
Experiment selection is optional: Handle null Improved logging

Sep 21, 2010:

6:49 PM Changeset [472] by tim.te.beek@…
Added TODO to kickstart development tomorrow
5:45 PM Changeset [471] by tim.te.beek@…
Made getData protected in SpectrumHitProvider? to allow for overriding …
4:00 PM Changeset [470] by tim.te.beek@…
Added method to extract relevant spectra
3:54 PM Changeset [469] by tim.te.beek@…
Added similarly implemented counts refinement Added test for counts …
3:39 PM Changeset [468] by tim.te.beek@…
Do not print Spectra with Compound.toString

Sep 20, 2010:

5:24 PM Changeset [467] by tim.te.beek@…
Added a rocking combined Mass / Spectrum search mode!
1:50 PM Changeset [466] by tim.te.beek@…
Added test to find the 60 Compounds with mass 330.xyz
1:41 PM Changeset [465] by tim.te.beek@…
Added preliminary test for combined mass & spec search to find Mass …
12:24 PM Changeset [464] by tim.te.beek@…
Update test file for parsing
Note: See TracTimeline for information about the timeline view.