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199 |
DM-1251
|
09/30/2014 15:34:14
|
CSS design for query metadata v1
|
The goal of this ticket (and DM-1250) is to try to understand what kind of per-query metadata is necessary to provide client-transparent query processing in case when czar/proxy could die or be restarted. Some relevant info is in the Trac: https://dev.lsstcorp.org/trac/wiki/db/Qserv/CSS/RunTimeState
| 3 |
200 |
DM-1254
|
09/30/2014 15:41:35
|
Metadata Store - design v1
|
Research potential off-the-shelf candidates. Propose initial version of metadata design.
| 5 |
201 |
DM-1281
|
10/01/2014 11:01:05
|
add Schema method to join strings using the appropriate delimiter
|
Delimiters in Schema field names are version-dependent. One can currently use {{schema["a"]["b"].getPrefix()}} to join fields using the appropriate delimiter, but this is confusing to read.
| 1 |
202 |
DM-1282
|
10/01/2014 11:18:26
|
multi-level replacement in Schema aliases
|
Schema aliases should support more than one level (i.e. an alias may resolve to another alias).
| 2 |
203 |
DM-1285
|
10/01/2014 14:13:21
|
Improve Startup of HTCondor Jobs
|
Adjust configuration parameters of HTCondor config and/or submission files to improve speed at which HTCondor jobs start in both the replicator pool and worker pool.
| 2 |
204 |
DM-1287
|
10/03/2014 02:40:29
|
Propose and document a recipe to build Qserv in eups
|
In-place build is available and documented.
| 2 |
205 |
DM-1293
|
10/03/2014 15:13:03
|
Implement designed tests for processCcd
|
Implement the designed tests with the installed data.
| 8 |
206 |
DM-1305
|
10/05/2014 19:05:22
|
Tests fail in shapelet when building on OS X 10.9
|
When building the master on pugsley.ncsa.illinois.edu, shapelet builds successfully, but two tests fail: {code} pugsley:lsstsw mjuric$ cat build/shapelet/tests/.tests/*.failed tests/testMatrixBuilder.py .F..... ====================================================================== FAIL: testConvolvedCompoundMatrixBuilder (__main__.MatrixBuilderTestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "tests/testMatrixBuilder.py", line 310, in testConvolvedCompoundMatrixBuilder self.assertClose(numpy.dot(matrix1D, coefficients), checkVector, rtol=1E-14) File "/Users/mjuric/test/lsstsw/stack/DarwinX86/utils/9.2+8/python/lsst/utils/tests.py", line 328, in assertClose testCase.assertFalse(failed, msg="\n".join(msg)) AssertionError: 1/50 elements differ with rtol=1e-14, atol=2.22044604925e-16 0.175869366369 != 0.175869366369 (diff=1.99840144433e-15/0.175869366369=1.13629876856e-14) ---------------------------------------------------------------------- Ran 7 tests in 0.323s FAILED (failures=1) tests/testMultiShapelet.py ...F... ====================================================================== FAIL: testConvolveGaussians (__main__.MultiShapeletTestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "tests/testMultiShapelet.py", line 88, in testConvolveGaussians self.compareMultiShapeletFunctions(msf3a, msf3b) File "/Users/mjuric/test/lsstsw/build/shapelet/python/lsst/shapelet/tests.py", line 107, in compareMultiShapeletFunctions self.compareShapeletFunctions(sa, sb, rtolEllipse=rtolEllipse, rtolCoeff=rtolCoeff) File "/Users/mjuric/test/lsstsw/build/shapelet/python/lsst/shapelet/tests.py", line 86, in compareShapeletFunctions rtol=rtolEllipse) File "/Users/mjuric/test/lsstsw/stack/DarwinX86/utils/9.2+8/python/lsst/utils/tests.py", line 328, in assertClose testCase.assertFalse(failed, msg="\n".join(msg)) AssertionError: 1/5 elements differ with rtol=1e-14, atol=2.22044604925e-16 2.44929359829e-16 != 1.13310777953e-15 (diff=8.881784197e-16/1.13310777953e-15=0.783842839795) ---------------------------------------------------------------------- Ran 7 tests in 0.131s FAILED (failures=1) {code} =============== More info on pugsley.ncsa.illinois.edu: pugsley:lsstsw mjuric$ sw_vers ProductName: Mac OS X ProductVersion: 10.9.5 BuildVersion: 13F34 pugsley:lsstsw mjuric$ clang -v Apple LLVM version 5.1 (clang-503.0.40) (based on LLVM 3.4svn) Target: x86_64-apple-darwin13.4.0 Thread model: posix ============ The files are in {{/Users/mjuric/test/lsstsw/build/shapelet/}}.
| 1 |
207 |
DM-1309
|
10/06/2014 04:32:58
|
Edit agreed-upon changes into Word version of LSE-69
|
A meeting around 9/26/2014 agreed on a set of revisions to LSE-69, with some language still needed from [~gpdf]. This action is to edit the tracked-changes Word version of LSE-69 containing the notes from that meeting into a final copy that can be reviewed by the Camera team and used as input to editing the SysML version of the ICD.
| 3 |
208 |
DM-1310
|
10/06/2014 04:34:55
|
Create change request for LSE-69
|
Create a change request to bring LSE-69 up to date and capture the Summer 2014 work.
| 1 |
209 |
DM-1311
|
10/06/2014 04:36:53
|
Enter LSE-69 update into EA as SysML
|
Covers entering the contents of the LSE-69 update into EA as SysML, with associated updating of diagrams, and the creation of a docgen'ed version for CCB action.
| 1 |
210 |
DM-1312
|
10/06/2014 04:40:50
|
Proofread docgen'ed version of LSE-72
|
Brian Selvy is producing a SysML version of the LSE-72 updated edited by [~gpdf]. The action here is to proofread the docgen of that version once it is ready.
| 2 |
211 |
DM-1313
|
10/06/2014 05:01:34
|
Identify Conditions information in LSE-130 that is required for Alert Production
|
LSE-69 declares that there are two categories of Conditions data (telemetry) required by DM from the Camera: those items that are needed for Alert Production (for which the AP components at the Base will need a whitelist, and for which the Camera has a tighter latency requirement), and those that are not (but are then presumably needed in DRP or other deferred productions). It states that the subset needed for AP should be enumerated in LSE-130. The action here is to create an initial version of that list.
| 2 |
212 |
DM-1314
|
10/06/2014 07:51:25
|
Publish Qserv S14 version on lsst distribution server
|
In order to publish this version please tag Qserv master tip with "2014_09.0" and then run: {code:bash} ssh lsstsw@lsst-dev # command below can't be runned in buildbot, as it doesn't support qserv_distrib build rebuild -t 2014_09.0 qserv_distrib # bXXX is provided by previous command publish -t qserv -b bXXX qserv_distrib publish -t 2014_09 -b bXXX qserv_distrib {code}
| 0.5 |
213 |
DM-1316
|
10/06/2014 13:34:23
|
Deploy LSST stack within OpenStack instances on ISL testbed
|
Deploy the LSST Stack within OpenStack instances within the ISL testbed -- this could be for multiple flavors CentOS, Ubuntu, etc, and this could be done by pulling Docker Images to the instances. There will also likely be some initial debugging of starting instances within the ISL platform as a new installation has been stood up Sept 2014.
| 1 |
214 |
DM-1317
|
10/06/2014 13:40:59
|
Create Docker Image / Dockerfile for LSST Stack for ubuntu
|
Create an installation of the LSST Stack v9_2 within a Docker Image for ubuntu for easing the import of LSST software into an OpenStack instance, We create the image utilizing a Dockerfile to make systematic the creation of such images.
| 2 |
215 |
DM-1318
|
10/06/2014 14:31:59
|
update expected results file in SDSS demo test
|
Update the expected outputs in the SDSS DM stack demo repo to match what we expect from the new meas_base framework.
| 1 |
216 |
DM-1331
|
10/06/2014 15:13:52
|
squash edge errors in SdssCentroid
|
SdssCentroid doesn't trap exceptions that are thrown due to being too close to the edge, resulting in noisy warnings in the logs. Instead, it should catch the low-level exception and re-throw as MeasurementError, after defining a flag field for this specific failure mode.
| 1 |
217 |
DM-1332
|
10/06/2014 15:17:49
|
address no-shape warnings in GaussianFlux
|
GaussianFlux relies on the shape slot, and puts noisy warnings in the logs when the shape slot fails. However, we probably don't want to add a new flag for GaussianFlux to indicate this failure mode, because it'd be entirely redundant with the shape slot flag. We should figure out some other way to squash this warning - how we do that may depend on whether this is addressed before or after the C++ redesign. We should also consider having GaussianFlux add an alias to the schema to point back at the shape slot flag, creating what looks like a specific flag for this failure while actually just being a link back to the shape slot flag. That's probably not worth doing within the current C++ interface, however, as it'd require some unpleasant mucking around with ResultMappers.
| 2 |
218 |
DM-1333
|
10/06/2014 15:28:05
|
resolve factor of two difference in GaussianFlux
|
After changing the implementation of GaussianFlux to use the shape slot rather than estimate the shape itself by re-running the SdssShape code, Perry saw a 5-15% difference in the fluxes (I'm not sure of the sign). The new behavior (using the shape) is consistent with what we'd have gotten with the old code when the little-used "fixed" config option was enabled (not surprising, as that just looked up the SdssShape measurement by name, instead of via slots). I suspect the difference is coming in because of the factor of two between SdssShape's "raw" measurements - the actual Gaussian-weighted moments - and the factor of 2 it applies to make its measurements equivalent to ideal unweighted moments. The correct weight function to use for GaussianFlux includes this factor of 2 (i.e. it's larger than the "raw" moments), and it's likely either the old code wasn't including this or the new code isn't. We need to determine which one, and if necessary, fix the new code.
| 2 |
219 |
DM-1334
|
10/06/2014 22:56:10
|
Test the creation of basic OpenStack instances on the new ISL testbed [IceHouse]
|
A new version & implementation of the ISL OpenStack testbed is up and running. The new cloud is using IceHouse, the ninth OpenStack release. We get started on this platform by verifying that basic instance creation is working. We target the creation of an instance through the (Horizon) GUI interface, and via the nova CLI.
| 1 |
220 |
DM-1335
|
10/06/2014 23:18:19
|
Create instance with a Floating IP Associated through the nova CLI
|
We see that in working with the Horizon GUI, it is fairly straightforward to give an instance a public IP address by associating a Floating IP with the current local IP. However, we will want to be able to accomplish this task both remotely and programmatically within workflow. As a step towards this, we target the solution of this via the nova CLI.
| 2 |
221 |
DM-1340
|
10/07/2014 14:04:32
|
Read through log4cxx documentation and log.git code
|
Read through the log4cxx documentation and become familiar with how the log.git package is set up.
| 2 |
222 |
DM-1343
|
10/07/2014 14:11:29
|
Write Unit test for new DM message appender class
|
Write unit tests for DM message appender class. This might also require some tests for a configurator class, if that class is created.
| 2 |
223 |
DM-1347
|
10/07/2014 14:36:33
|
Refine Event base class to allow ActiveMQ filterable settings
|
The current Event.cc base class needs to be refined to remove and old-style data release terms that aren't used anymore. Plus, it needs to be easily extensible to allow other types of dictionaries of terms that will be used in the message headers to make them filterable on the server side.
| 2 |
224 |
DM-1348
|
10/07/2014 14:37:59
|
Update tests to use unit test framework
|
The tests for this package predate the unit test framework that other package use. Update the tests to uses the unit test framework and get rid of any duplicate or obsolete tests.
| 5 |
225 |
DM-1352
|
10/07/2014 15:31:29
|
ORIGINATORID value can churn too quickly.
|
The ORIGINATORID is a 64-bit word consisting of an IPv4 host address, 16-bit process id, and 16-bit local value. In addition to the 16-bit process id not being standard across platforms (Mac OS >Leopard goes to 99999), the churn rate for the local value should be much higher than just 16 bits. This could be fixed to changing ORIGINATORID to a 32-bit process id and a separate value for the local value, which would be specified together in the DM event selector. I have to look into this more to see if this is a viable solution. This might need to go to three separate values to future proof it (i.e., ipv6).
| 8 |
226 |
DM-1354
|
10/08/2014 14:46:38
|
Install docker 1.1.2 in an ISL OpenStack CentOS instance, perform basic checks
|
Install docker 1.1.2 in an ISL OpenStack CentOS 6.5 instance, and perform basic checks such stopping and starting the docker daemon, changing default settings such as size limit of containers/images, pulling standard images from docker hub, starting containers from these images, etc.
| 2 |
227 |
DM-1355
|
10/08/2014 16:43:59
|
Re-arrange how Qserv directories are installed
|
we already touched question about installation directory structure at a meeting, maybe we can improve things by re-arranging how things are installed we are currently installing stuff into four directories: cfg, bin, lib, proxy to make it look more standard and to avoid clash with qserv source directories we could move cfg and proxy to a different location (something like share/qserv to make it more root-install-friendly in case we ever want to install under /usr) this change (if you want to do it) deserves separate ticket, do not do it in this ticket
| 3 |
228 |
DM-1358
|
10/09/2014 10:11:29
|
End-to-end demo fails to exit with the correct status when Warning would be correct.
|
The output of demo2012 results in an output file which is compared against a benchmarked file. Currently the comparison allows a deviation from the benchmark based "on the the number of digits in the significands used in multiple precision arithmetic"; that number is currently set to 11. An example using that setting is: @ Absolute error = 5.9973406400e-1, Relative error = 9.1865836000e-4 ##2566 #:25 <== 29.7751550737 ##2566 #:25 ==> 29.7478269835 Additionally, the current use returns: a 'Fatal' error if the code itself fails to execute correctly; a "Warning' error if the any of the benchmarked quantities do not meet the comparison criteria; 'Success' if the comparison meets all criteria. It is noted that the buildbot 'Warning' color indicator is not currently being displayed when the comparison fails. That is a coding error. This Issue will: * ensure that BUILDBOT_WARNING(S) causes the correct display color when appropriate. This Ticket has been split into two parts. This is part 1. Part 2 is DM-1379
| 2 |
229 |
DM-1360
|
10/09/2014 16:42:13
|
Fix minor loose ends from new result plumbing
|
Some of the more minor issues raised in comments from DM-199 were left undone prior to merging. This ticket addresses them. For more information, please see: https://github.com/LSST/qserv/pull/2 .
| 1 |
230 |
DM-1362
|
10/09/2014 23:27:06
|
Edit pull interface and other Summer 2014 work into LSE-68 in Word
|
Deliverable: circulate a Word-based draft of LSE-68 in which the "push" interface is removed, and the "pull" interface is refined to include the guider and other Summer 2014 work. Note that the use of "pull" for the guider applies whether or not the proposed guider redesign is accepted.
| 2 |
231 |
DM-1363
|
10/10/2014 01:06:28
|
Avoid use of ~/.my.cnf (used by css watcher)
|
See https://jira.lsstcorp.org/browse/DM-1258?focusedCommentId=29230&page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel#comment-29230. {{~/.my.cnf}} is used by css watcher, an optional tool used for monitoring css. It is a symlink to $QSERV_RUN_DIR/etc/my-client.cnf. The css watcher could use MySQL credentials located in ~/.lsst/qserv.conf (used by integration tests wich are a Qserv/MySQL client)
| 2 |
232 |
DM-1364
|
10/10/2014 14:04:07
|
replace "bad data" flag in SdssCentroid
|
SdssCentroid has a "bad data" flag that doesn't actually convey any information about what went wrong. This should be replaced with one or more flags that provide more information.
| 3 |
233 |
DM-1372
|
10/13/2014 17:17:19
|
Errors in testHealpixSkyMap.py
|
There is a failing unit test when healpy is supplied. The problem is that the method boundary is not defined in the version of healpy we supply for the sims, however boundaries does exist. If I replace boundary with boundaries, the test passes.
| 0.5 |
234 |
DM-1375
|
10/13/2014 19:13:49
|
Create Docker Image / Dockerfile for LSST Stack for CentOS6.5
|
Make a Dockerfile for systematic generation of docker images using a Centos6.5 base image containing the LSST Stack (v9_2 at the moment) and library dependencies.
| 2 |
235 |
DM-1376
|
10/13/2014 19:25:38
|
Ensure that the partition package is C++11 clean and compiles on OSX 10.9
|
The LSST buildbot infrastructure recently changed to building everything with --std=c++0x, which broke the partition package, and hence automated Qserv builds. While debugging this, I discovered that the partition package does not build on OSX 10.9, and considering how minimal its dependencies are, it really should. The OSX issue can be fixed by avoiding {{using boost::make_shared}}. The partition package should be cleaned up to avoid all use of {{using}}. If we decide to use C++11 in Qserv, then the codebase should also be modernized (in particular, there are use-cases for static_assert, nullptr, etc... ).
| 2 |
236 |
DM-1386
|
10/15/2014 16:30:54
|
Merge Footprints from different bands/epochs
|
The current concept of the deblender assumes that the inputs are - A merged set of Footprints that define which pixels are part of the blend - A merged set of Peaks within that merged Footprint Please generate these merged Footprints (which will be defined in (x, y) coordinates in the tract/patch coordinate system).
| 5 |
237 |
DM-1387
|
10/15/2014 16:32:03
|
Generate a master list of Objects given detections in multiple bands/epochs
|
Once we've detected Sources in multiple bands we need to merge the positions to generate Objects. This is a little complicated (or at least messy): - The positions have errors - If the seeing is different in different visits, objects may be blended in some but not all exposures - If we use more than one detection pass (e.g. smoothing when looking for faint objects, not smoothing for bright) this has similar-but-different consequences (but we should probably deal with in the per-band processing) - Objects move, so even if the positions are within the errors the motion may still be detectable
| 5 |
238 |
DM-1388
|
10/15/2014 18:48:03
|
Submit LCR for LSE-68
|
Create an LCR, including a summary of changes, for LSE-68.
| 2 |
239 |
DM-1394
|
10/16/2014 16:45:22
|
Eups 1.5.4 requires each new shell to source the eups setups.sh
|
eups v 1.5.4 requires each new shell to source ...eups/../bin/setups.sh. This requires the buildbot scripts: runManifestDemo.sh, create_xlinkdocs.sh, be updated to individually do that task. Add demo2012: bin/demo.sh .
| 2 |
240 |
DM-1396
|
10/17/2014 00:26:11
|
Design CSS schema to support database deletion
|
Need to implement deleting databases. Deliverable: a design of the system that will be capable of deleting a distributed database including all copies of that database on all workers, all replicas of all chunks are deleted. It should be possible to "create database x" at any time later.
| 2 |
241 |
DM-1404
|
10/21/2014 12:58:03
|
Create suite of Dockerfiles / docker images for LSST Stack for ubuntu, CentOS
|
Building on issues DM-1317 and DM-1375 where initial images and Dockerfile's were constructed, we can now use these Dockerfile's as prototypes to extend the set of Dockerfiles & images. We observe that by making simple (scriptable) edits to the initial Dockerfile, we can run 'docker build' to make docker images for several combinations of OS and base compiler gcc version.
| 2 |
242 |
DM-1407
|
10/23/2014 10:24:18
|
Add return code for integration tests
|
Integration test have to returns non-zero when failing. This will ease use of CI or debugging tools ({{git bisect}}, buildbot).
| 0.5 |
243 |
DM-1424
|
10/24/2014 10:39:48
|
Create persistent volume of Cinder block storage and attach to instance
|
We create a persistent volume of Cinder block storage and attach to working instance. When it was created, the instance does have a specified amount of ephemeral disk, but this disk will be destroyed with the instance. We want to test that we can create a persistent volume of block storage, attach it to an instance, format the storage with a file system, and mount the volume for use with processing, where data/output can be retained after the instance is destroyed.
| 1 |
244 |
DM-1431
|
10/27/2014 12:48:35
|
Process sample sdss data with LSST Stack in a Docker container in OpenStack
|
Process sample sdss data, starting with the lsst_dm_stack_demo, with LSST Stack in a Docker container in an OpenStack instance.
| 2 |
245 |
DM-1434
|
10/28/2014 13:16:55
|
State diagram for jobs in progress
|
Build a state diagram showing job progress throughout a run.
| 13 |
246 |
DM-1439
|
10/28/2014 15:14:37
|
afw tests use the same name for a dummy file: test.fits
|
The afw package uses a file named: test.fits in multiple testers. If the user sets up the build to use multiple CPU (-j #), then there is the risk that the shared filename will be affected by more than one tester at a time. In the case which provoked this Issue, the tester: testSimpleTable.py, reported that the file was missing. A simple rerun managed to get past the error. I recommend that the different testers use uniquely named demo files.
| 1 |
247 |
DM-1440
|
10/28/2014 22:50:03
|
Github Transition: Naming conventions for repositories
|
The Simulations team has requested that repos in general and the numerous DM repos in particular are prefixed in a way that would make fitering them out of searches and display easy (for example, their repos are prefixed sims_*) This would be an evident useability aid to DM developers and outside contributors too. Obtain a decision on how to allow users to quickly isolate repositories they are interested in.
| 3 |
248 |
DM-1443
|
10/28/2014 22:59:01
|
Github Transition: pull request discussion, retention - proof of concept
|
Store review comments / PR discussion into relevant git repositories Code & process to do this on a continuous basis post-transition will be a different issue,
| 1 |
249 |
DM-1444
|
10/29/2014 09:57:16
|
Test absence of individual components
|
Test absence of individual components of the AP simulator. Bring each down, run the system, and restart just those components to see if the system still operates as expected
| 2 |
250 |
DM-1448
|
10/29/2014 17:44:31
|
Move code for mock images into afw so it reusable.
|
There is some code in the exampleUtils in $IP_ISR_DIR/examples that could be of wider use. Specifically there is code to generate mock darks, flats, and raw data from a mock camera. There is also code to generate a mock dataRef. It could be used more widely if moved someplace else. Russell suggested afw.cameraGeom.utils.
| 1 |
251 |
DM-1461
|
10/31/2014 18:35:40
|
C++ Redesign -- Result definition for custom algorithms
|
Additions to Jim's redesign to make it easier to define custom results.
| 3 |
252 |
DM-1462
|
10/31/2014 18:38:50
|
Add NaN check to PixelFlags
|
The test of PixelFlags in measureSources.py (from measAlg) requires a check to be sure that the center inputs are not NaN.
| 1 |
253 |
DM-1463
|
10/31/2014 18:40:20
|
SdssShape shiftMax config item is being ignored
|
The code we ported from meas_algorithms sets the maxShift to 2 without regard to the config item which is supposed to set that value.
| 1 |
254 |
DM-1464
|
11/03/2014 08:09:33
|
Design Review prep for C++ redesign
|
Write up the design developed on DM-829 and push it through review.
| 1 |
255 |
DM-1469
|
11/03/2014 15:30:20
|
Github Transition Plan: Reverse mirror for beta-tester repositories
|
Test the reverse mirror for beta-testers. Straw man: 1. Break the mirror for anybody beta-testing github workflow 2. Mirror back to new gitolite area: "mirror") Method: https://help.github.com/articles/duplicating-a-repository/
| 1 |
256 |
DM-1475
|
11/04/2014 16:10:54
|
Fix 2014_09 documentation
|
Replace {{NEWINSTALL_URL=http://sw.lsstcorp.org/pkgs/}} with: {{NEWINSTALL_URL=http://sw.lsstcorp.org/eupspkg/}} and {{eups distrib install qserv_distrib 2014_10.0}} with: {{eups distrib install qserv_distrib -t 2014_10}}
| 0.5 |
257 |
DM-1480
|
11/05/2014 14:19:46
|
Buildbot master takes exception when exiting from mail notifier after dynamic email sent.
|
Buildbot master exits without posting the required statically-addressed email notification if a dynamically-addressed was sent. This fix needs to ensure that the required (by buildbot specification) static email is sent even if it has to be directed to a dead-letter box (which it is).
| 3 |
258 |
DM-1481
|
11/05/2014 15:30:53
|
Discover/learn what others are doing in astronomy software
|
Attend the annual ADASS conference to keep up with the software development in the astronomy community. Trey Roby, Tatiana Goldina, Xiuqin Wu plan to attend the ADASS 24.
| 20 |
259 |
DM-1497
|
11/10/2014 15:02:24
|
Package Qserv mono-node instance in Docker
|
Learn Docker basics and then package a Qserv mono-node instance.
| 5 |
260 |
DM-1498
|
11/10/2014 15:03:13
|
Package Qserv master and worker instance in Docker
|
Learn Docker basics and then package a Qserv mono-node instance.
| 5 |
261 |
DM-1505
|
11/11/2014 13:20:13
|
confusing error message when enabling unregistered items in RegistryField
|
pex_config seems to split out this confusing error message when trying to enable (i.e. append to .names) a registry item that doesn't exist: {code:hide-linenum} File "/home/lam3/tigress/LSST/obs_subaru/config/processCcd.py", line 51, in <module> root.measurement.algorithms.names |= ["jacobian", "focalplane"] File "/tigress/HSC/LSST/lsstsw/anaconda/lib/python2.7/_abcoll.py", line 330, in __ior__ self.add(value) File "/tigress/HSC/LSST/lsstsw/stack/Linux64/pex_config/9.0+26/python/lsst/pex/config/configChoiceField.py", line 72, in add r = self.__getitem__(value, at=at) AttributeError: 'SelectionSet' object has no attribute '__getitem__' {code}
| 1 |
262 |
DM-1506
|
11/11/2014 13:38:48
|
Support new version of newinstall.sh
|
newinstall.sh now creates loadLSST.bash instead of loadLSST.sh. This has to be taken in account in Qserv automated install script: qserv-install.sh and in Qserv documentation.
| 0.5 |
263 |
DM-1514
|
11/13/2014 12:40:33
|
calling extend with a SchemaMapper should support positional arguments
|
Calling {{catalog.extend(other, mapper)}} isn't equivalent to {{catalog.extend(other, mapper=mapper)}} because the second argument is the boolean {{deep}}. When a SchemaMapper is passed as the second argument, we should recognize it for what it is.
| 1 |
264 |
DM-1515
|
11/13/2014 12:57:11
|
sconsUtils fails to identify Ubuntu's gcc
|
On Ubuntu 12.04, gcc --version says: {code:hide-linenum} gcc (Ubuntu/Linaro 4.6.3-1ubuntu5) 4.6.3 Copyright (C) 2011 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. {code} This apparently isn't quite what sconsUtils expected, because it says: {code:hide-linenum} scons: Reading SConscript files ... Checking who built the CC compiler...(cached) error: no result CC is unknown version unknown {code} Happily, everything seems to work anyway, as the fall-back options for the unknown compiler work fine with this one.
| 1 |
265 |
DM-1524
|
11/17/2014 12:21:49
|
Switch readMetadata' return value from PropertySet to PropertyList
|
It'd be useful if readMetadata would return PropertyList instead of PropertySet, because in many situations order matters. For details, see discussion in DM-1517
| 2 |
266 |
DM-1529
|
11/17/2014 14:38:58
|
Reorganize docker image repositories and align with github
|
A heterogeneous collection of docker images have been accumulating within the public docker repository daues/lsstdistrib . Such a heterogeneous collection prevents the assignment of a "latest" tag to allow users to easily obtain the most recent image for a particular item (detailed version numbers, labels currently required.) Thus we should break out the single repository into multiple repositories where are "latest" tag will be effective. We also make github repositories of matching names to hold the Dockerfiles which produced images (a common pattern for github/dockerhub usage, especially with automated builds; so we start this practice.)
| 2 |
267 |
DM-1538
|
11/18/2014 13:34:43
|
Fix qserv_testdata documentation
|
qserv_testdata relies on sconsUtils, and its build procedure has to be clearly documented.
| 0.5 |
268 |
DM-1539
|
11/18/2014 13:40:21
|
Add support for mysql JDBC driver
|
SUI which rely on JDBC fail because they internally issue some queries that are not yet supported by Qserv. Need to patch it (in the short term), and add proper support (in the long term). This story covers the patching only. The queries that upset Qserv are listed below. {code} SHOW VARIABLES WHERE Variable_name ='language' OR Variable_name = 'net_write_timeout' OR Variable_name = 'interactive_timeout' OR Variable_name = 'wait_timeout' OR Variable_name = 'character_set_client' OR Variable_name = 'character_set_connection' OR Variable_name = 'character_set' OR Variable_name = 'character_set_server' OR Variable_name = 'tx_isolation' OR Variable_name = 'transaction_isolation' OR Variable_name = 'character_set_results' OR Variable_name = 'timezone' OR Variable_name = 'time_zone' OR Variable_name = 'system_time_zone' OR Variable_name = 'lower_case_table_names' OR Variable_name = 'max_allowed_packet' OR Variable_name = 'net_buffer_length' OR Variable_name = 'sql_mode' OR Variable_name = 'query_cache_type' OR Variable_name = 'query_cache_size' OR Variable_name = 'license' OR Variable_name = 'init_connect' SELECT @@session.auto_increment_increment SET NAMES latin1 SET character_set_results = NULL SET autocommit=1 SET sql_mode='STRICT_TRANS_TABLES' {code}
| 2 |
269 |
DM-1541
|
11/18/2014 14:08:19
|
Add support for transmitting [VAR]BINARY column data
|
The code that pulls data out of a {{MYSQL_ROW}} and puts it into a protobuf {{RowBundle}} does not handle binary data correctly. See [_fillRows|https://github.com/LSST/qserv/blob/master/core/modules/wdb/QueryAction.cc#L217] for the relevant code. The issue is that the generated {{add_column(const char*)}} member function of {{RowBundle}} treats the input as C-style NULL-terminated strings. But in the case of {{BINARY}} column data (and {{VARBINARY}}/{{BLOB}} variants, maybe also {{BIT\(n\)}}), the contents can contain embedded NULLs. We are currently using such columns for user defined types in MySQL (e.g. image bounding polygons), so it's important to get this right. On the protobuf side the fix is as simple as calling {{add_column(const char* value, int size)}} instead. I'm not a MySQL C API expert, but the size will presumably have to be obtained/derived from the corresponding {{MYSQL_FIELD}}.
| 8 |
270 |
DM-1545
|
11/19/2014 15:29:04
|
Span-based shrink operations for Footprint
|
Analogous to DM-1128, but shrinking rather than growing footprints.
| 5 |
271 |
DM-1571
|
11/25/2014 11:07:06
|
Setup Qserv for SUI tests
|
Setup Qserv on lsst-db2 with and load some reasonable data set (perhaps PT 1.2). One potential caveat: we need to setup access for some accounts that are ideally other than our internal qsmaster.
| 2 |
272 |
DM-1573
|
11/25/2014 14:13:38
|
Basic validation of LSST pipeline on HSC data
|
Get the pipeline running on HSC data to the point where nothing is obviously wrong.
| 8 |
273 |
DM-1578
|
11/25/2014 17:56:16
|
Move photocal out of meas_astrom
|
It is confusing that photocal is in meas_astrom. I assume that is historical. I think it could probably live in pipe_tasks.
| 2 |
274 |
DM-1579
|
11/25/2014 17:58:40
|
Implement replacement for A.net index files
|
Astrometry.net index files are hard to generate and hard to read. We need another, more flexible, more standard system for storing reference files. We should also be able to read FITS files and other formats, but having a standard format with the utilities to create and query them is a must. Coming up with a format that satisfies astrometry.net's solver may be too hard, because a.net requires quads, which a non-blind solver may not need. However, a format that we can convert to something suitable for a.net would probably suffice (conversion would presumably be a separate task that is run once). It will be easier to identify a suitable format once we have identified at least one solver other than than a.net that we wish to implement or adapt. hscAstrom appears to use a catalog of star positions, which is nice and simple.
| 5 |
275 |
DM-1582
|
11/25/2014 20:04:18
|
Qserv spatial restrictor names are case sensitive
|
The SQL grammar treats Qserv spatial restrictor names case insensitively, but {{qana/QservRestrictorPlugin.cc}} does not, which means that one must use e.g. {{qserv_areaspec_box}} rather than {{qserv_areaSpec_box}}. We are loose with case in a lot of our wiki pages, so we really should fix this to avoid confusing users. Also, case insensitivity is consistent with MySQL behavior for UDF names.
| 1 |
276 |
DM-1587
|
11/26/2014 11:37:24
|
Define structure of web form for collecting metadata about existing data sets
|
Web alpha version of the form (using django or Fermi Java webservices code) that collects input from users about data repositories. Authentication not covered in this version.
| 2 |
277 |
DM-1590
|
11/26/2014 11:46:07
|
Break down & discuss DM-1074
|
I will take the lead on DM-1074. First step will be to sit with [~jbosch], get a feeling for what needs to be done, and sketch out a set of stories.
| 1 |
278 |
DM-1600
|
12/01/2014 13:00:16
|
Determine if Astrometry class is desired
|
The question is whether the Astrometry class is the thing that is overridden or if the AstrometryTask has component configurables that are overridden. Also, determine location default implementation.
| 2 |
279 |
DM-1601
|
12/01/2014 15:04:13
|
Add support for c-style comments in front of queries sent to qserv
|
Connecting to qserv from java fails because the jdbc driver inserts comments. "/* ... */" in front of queries (example pasted below). The fix involves removing the comments at the proxy level {code} SQLException: Qserv error: 'ParseException:ANTLR parse error:unexpected token: /:' Query being executed when exception was thrown: /* mysql-connector-java-5.1.34 ( Revision: [email protected] ) */SHOW VARIABLES WHERE Variable_name ='language' OR Variable_name = 'net_write_timeout' OR Variable_name = 'interactive_timeout' OR Variable_name = 'wait_timeout' OR Variable_name = 'character_set_client' OR Variable_name = 'character_set_connection' OR Variable_name = 'character_set' OR Variable_name = 'character_set_server' OR Variable_name = 'tx_isolation' OR Variable_name = 'transaction_isolation' OR Variable_name = 'character_set_results' OR Variable_name = 'timezone' OR Variable_name = 'time_zone' OR Variable_name = 'system_time_zone' OR Variable_name = 'lower_case_table_names' OR Variable_name = 'max_allowed_packet' OR Variable_name = 'net_buffer_length' OR Variable_name = 'sql_mode' OR Variable_name = 'query_cache_type' OR Variable_name = 'query_cache_size' OR Variable_name = 'license' OR Variable_name = 'init_connect' {code}
| 1 |
280 |
DM-1603
|
12/02/2014 13:09:09
|
Qserv scons scripts do not pick up the version of swig provided by eups
|
See the summary. The consequence is that the Qserv integration tests fail on systems that provide swig 2.x+ - there seems to be some implicit dependency on SWIG 1.x. The reason may be that swig is getting confused about shared_ptr to objects that are defined in one module, but used in another (recent swig reorganization split czar and css into two separate swig modules).
| 2 |
281 |
DM-1607
|
12/02/2014 19:16:27
|
Add unit tests to test c-style comments in/around queries
|
I should have thought about it when doing DM-1601 but I didn't... it'd be good to add test queries that test comments before/after/inside query.
| 1 |
282 |
DM-1608
|
12/03/2014 11:06:30
|
Move meas_algorithms unit tests to meas_base framework
|
The following tests in meas_algorithms need to be ported to the meas_base framework: measure.py psfSelectTest.py testPsfDetermination.py ticket2019.py testCorrectFluxes.py (though this cannot be done until the algorithm exists)
| 2 |
283 |
DM-1614
|
12/03/2014 14:53:03
|
Add support for mysql JDBC driver (v2)
|
MySQL client 4.1 and higher is stripping out comments before sending them to server, so the fixes done in DM-1539 are not sufficient.
| 1 |
284 |
DM-1615
|
12/03/2014 15:48:52
|
Design and implement CSS structure for distributed Qserv setup
|
For management of the distributed databases/tables we need info in CSS about all workers and tables. The info will be created by data loader and updated by replicator which do not exist yet. For this issue we need to provide python API which can fill the same information in CSS so that we can build and test other pieces needed for this epic.
| 5 |
285 |
DM-1616
|
12/03/2014 15:56:25
|
Implement remote host access for management framework
|
To manage remote workers we need a way to access services on remote machines that run workers. Services may be something like mysql (which we would prefer to run without TCP port open) and optionally xrootd. This ticket will implement Python module which will hide a complexity of doing things like ssh/port forwarding/authentication from the client.
| 5 |
286 |
DM-1617
|
12/03/2014 16:05:22
|
Client library for accessing distributed database/table information from CSS
|
Provide Python interface for accessing information in CSS which is relevant to distributed management, such as database/table/node data. This interface can be used also by data loader and replicator.
| 8 |
287 |
DM-1621
|
12/03/2014 18:00:56
|
Add unit test to to verify zookeeper versioning works
|
This is a follow u pto DM-1453, we need to add a unit test that will prove that mismatched versions in zookeeper and software are properly handled.
| 1 |
288 |
DM-1626
|
12/03/2014 18:12:23
|
Build 2014_12 Qserv release
|
The title says it all. Please open ticket for next release when closing this one.
| 1 |
289 |
DM-1629
|
12/03/2014 22:55:57
|
Adopted/Retired RFCs are not counted as resolved
|
Also, marking an RFC as Adopted brings up a box with a message applicable to the Closed status.
| 1 |
290 |
DM-1630
|
12/03/2014 22:58:23
|
New RFCs should result in dm-devel E-mails and HipChat postings
|
Email notices of new RFCs filed with a DM component go to dm-devel Email notices of new RFCs filed with a DM component go to Data Management chat room Email notices of all new RFCs go to Bot: RFC room
| 1 |
291 |
DM-1632
|
12/04/2014 11:33:57
|
Build 2014_11 Qserv release
|
The title says it all. Please open ticket for next release when closing this one. Tasks to do: - publish last buildbot build under a temporary eups-tag ("qserv-dev")and test it, if it works fine: - create git-tags for Qserv and dependencies - publish the release with eups-tags "qserv" and "YYYY_MM" - generate and publish the doc for release "YYYY_MM" - update release number in Qserv code and set "YYYY_MM+1" as release in dev and "YYYY_MM" as stable release (update {{admin/bin/qserv-version.sh}}, {{doc/source/conf.py}}, {{doc/source/toplevel.rst}}) - generate and publish the doc for release "YYYY_MM+1" - look at the doc - commit {{admin/bin/qserv-version.sh}}, {{doc/source/conf.py}}, {{doc/source/toplevel.rst}} with current ticket number This procedure should be validated and documented.
| 1 |
292 |
DM-1635
|
12/04/2014 14:31:37
|
Remove redundant CORS headers from Firefly's http response
|
Make sure CORS related headers are not sent when the Origin header is missing. Firefox does not like it.
| 1 |
293 |
DM-1653
|
12/11/2014 12:32:38
|
Extend data loading script to support multi-node setup
|
Implement simplest use case for data loading with one or more worker database separate from czar database. Simplest means minimal functionality in what concerns access to workers, just assume for now that we can connect to every worker directly using regular TCP connection. It should be possible to just add a list of worker nodes as an option to loader script and send the chunks in some random order to the workers in that list. Of course chunks for different tables should end up on the same host, so some form of chunk management is needed (use for now whatever is defined in CSS doc on trac).
| 8 |
294 |
DM-1655
|
12/12/2014 12:49:08
|
Working with SLAC on definition of metadata store
|
Follow up metadata store schema development to ensure SUI will be able to use it. Define the fields that should go into Data Definition table. Define the fields that must be present in the image metadata table, which SUI will be searching.
| 2 |
295 |
DM-1658
|
12/12/2014 15:51:28
|
Add git bisect tool for Qserv repos
|
{code:bash} fjammes@clrlsst-dbmaster-vm:~/src/qserv (u/fjammes/DM-627 $%) $ qserv-test-head.sh -h Usage: qserv-test-head.sh [options] Available options: -h this message -q quick: only rebuild/install new Qserv code, and perform test case #01 Rebuild from scratch, configure and run integration tests against a Qserv git repository. Pre-requisite: source loadLSST.bash setup qserv_distrib -t qserv setup -k -r ${QSERV_SRC_DIR} Can be used with 'git bisect' : cd ${QSERV_SRC_DIR} git bisect start git bisect bad git bisect good git-commit-id git bisect run /home/fjammes/src/qserv_testdata/bin/qserv-test-head.sh {code} Code is in DM-627 ticket branch.
| 2 |
296 |
DM-1659
|
12/12/2014 16:42:48
|
Aperture Flux back into an abstract class
|
The last change to ApertureFlux to make it work with the new C++ design changed ApertureFluxAlgorithm into an instantiatable class. However, I have now figured out how to make this work with SWIG while still allowing measure and fail to be defined by default at the ApertureFlux level.. So this issue is to put things back in order.
| 1 |
297 |
DM-1661
|
12/12/2014 18:47:03
|
czar log4cxx link/load bug
|
Under ubuntu 14.04 (at least), the czar falls over at load time with an unresolved sym for typeinfo for log4cxx::helpers::ObjectPtrBase while loading the css python wrapper shared lib.
| 2 |
298 |
DM-1667
|
12/16/2014 16:22:02
|
Install PgMySQL and use to connect to local Qserv.
|
Used "pip" to install it. "Conda" should work as well. Therefore, it should be easy to make it part of the delivered system: VM, container, tar file, after the fact download, etc. It has documentation, uses the MIT license, under active development and available from PyPI. DB connection is straight forward and requires little experience to get meaningful work done.
| 2 |
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