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2,699 |
DM-13630
|
02/22/2018 18:35:19
|
Image distance tool fails in particular case where some images searched were not found
|
When searching images, sometimes there are images that are not found or the area searched is not covered by the dataset chosen. Example: search for m34 on SEIP, see last image (MIPS24 is missing because no image is covering this target). The result can be a mix of rendered images and failed images. When this happen, the following operations on images failed (maybe others): distance tool offset calculation and flipping around axis. It happens in Firefly tri-view and IRSA apps (FC/IV).
| 2 |
2,700 |
DM-13632
|
02/23/2018 11:17:42
|
Add additional conda packages to the lsst-dev shared stack
|
On Slack, [~tmorton] writes: {quote} {code} conda install dask distributed datashader conda install bokeh=0.12.14 conda install -c conda-forge holoviews conda install -c ioam parambokeh {code} Oh, and fastparquet {quote} [~hchiang2] says: {quote} Is it possible to install fastparquent in the shared stack at {{/software}}? It's used in {{pipe_analysis}}. {quote}
| 1 |
2,701 |
DM-13635
|
02/23/2018 12:15:32
|
Test kafka mirrormaker service
|
Set up a Kafka MirrorMaker service that is capable of making a copy of all or a subset of data and topics in another Kafka cluster. This is useful for copying a Kafka service to external downstream brokers and potentially for our mini-broker if we have multiple Kafka clusters.
| 3 |
2,702 |
DM-13637
|
02/23/2018 15:12:50
|
WarpCompare: Bad amps eat up temporal budget
|
Overlapping bad amps eat up the temporalThreshold budget. For example if a local region has 10 visits, and 3 of those visits are not included because of bad amps, then no candidates are clipped. CLIPPED mask for {{/datasets/hsc/repo/rerun/private/yusra/RC/DM-13553+DM-134110}}: 9813, HSC-Z !mask_DM-13553+DM-134110_9813HSC-Z.png|thumbnail! Seen since DM-12692: Bad amps can be seen in this epochCountImage: !Screen Shot 2018-01-25 at 12.20.55 PM.png|thumbnail! If any detections the warpDiffs are entirely covered with the badPixelMask, then don't contribute to the rolling epochCountImage or clip.
| 5 |
2,703 |
DM-13638
|
02/23/2018 15:30:07
|
Allsky visualization in Firefly phase 2
|
Phase two work for allsky visualization.
| 100 |
2,704 |
DM-13644
|
02/26/2018 08:29:32
|
weekly-release w_2018_08 failed
|
{{w_2018_08}} failed building the py3 osx "tarballs".
| 0.5 |
2,705 |
DM-13649
|
02/26/2018 10:59:19
|
deployment of SUIT using Kubernetes in LSP
|
Deploy SUIT in LSP kubernetes cluster.
| 8 |
2,706 |
DM-13653
|
02/26/2018 12:20:19
|
Dynamic reconfiguration of the worker services when loading new catalogs
|
In the present implementation of the catalog loading scripts Qserv worker services need to be restarted each time a database is added or removed to/from a worker node. The restart is made by the *wmgr* service upon a request from the loader script. This scheme causes inconveniences in certain deployments, including Kubernetes-based multi-node integration tests. Hence a goal of this ticket is to replace the hard restart with a request to dynamically reload databases sent from *wmgr* to the worker services. The implementation will be based on a mechanism added as per [DM-13303]. Additional requirements to the proposed change: * it should not affect the single-node integration test * it should not require any changes to the catalog loading procedure (script: *qserv-data-loader.py*)
| 2 |
2,707 |
DM-13654
|
02/26/2018 13:54:52
|
Set SENSOR_EDGE in coadds
|
These nice before and after plots shown in DM-13410 were from a the pre-review test run. The version that got merged doesn't set SENSOR_EDGE (and consequently INEXACT_PSF) of the new EDGE pixels. This has the effect that fewer sources measured on the coadd will have the inexactPsf_flag set. However, most (80-98%) of the EDGE pixels are also BAD or INTRP which are then "REJECTED" which then propagates to INEXACT_PSF: !DM-13410_vs_08_SENSOR_EDGE.png|thumbnail! !DM-13410_vs_08_REJECTED.png|thumbnail! !DM-13410_vs_08_INEXACT.png|thumbnail!
| 1 |
2,708 |
DM-13656
|
02/27/2018 00:06:18
|
Implement Developer Guide Topic Reorganization
|
Implement RFC-453. by reorganizing the topics in the Developer Guide. Redirection pages will also be implemented. The basic structure proposed in RFC-453 (and given in attached map) is acceptable. There is some concern about the “workflow” topics, and where JIRA and GitHub fit. We’ll have to continue thinking about this as the reorganization shakes out.
| 5 |
2,709 |
DM-13669
|
02/27/2018 11:00:34
|
Track and log measurement/reference outliers separately
|
jointcal currently tracks the total number of outliers per minimization step ("INFO: Total number of outliers 2578"). We should change that to separately track measurement and reference outliers so that we can compare them independently. With this, we can plot the number of each type of outlier that was removed per fitting step, which can help tell us something about how stable the fit is. (see the final plot in Dominique's {{Astrometry.ipynb}})
| 2 |
2,710 |
DM-13680
|
02/28/2018 09:19:39
|
SkyWcs(FrameDict) is not adequately tested
|
The {{SkyWcs(FrameDict const&)}} constructor is not adequately unit-tested. It is exercised as part of a test, but not explicitly tested. Enhance test_skyWcs.py to explicitly test this constructor.
| 2 |
2,711 |
DM-13686
|
02/28/2018 15:31:08
|
Saving a particular FrameSet as FITS-WCS causes a segfault
|
The attached FrameSet (string representation is in "skyWcsFrameSet2.txt") causes a segfault in astshim when writing to an astshim FitsChan as FITS-WCS using the attached code "example.txt". I suspect the bug is in AST and have reported it to David Berry.
| 1 |
2,712 |
DM-13688
|
03/01/2018 09:28:20
|
Write up design proposal for Registry/Datastore boundary
|
This is a retroactive ticket to capture work already done: writing up [https://confluence.lsstcorp.org/pages/viewpage.action?pageId=73570480] to guide a discussion on 2018-02-14.
| 2 |
2,713 |
DM-13690
|
03/01/2018 09:32:58
|
Write up Gen3 Butler / obs_* package interface sketch
|
Output will be a confluence page that describes what Gen3 Butler will expect from obs_* packages. Intended audience is [~krughoff] and the obs_* package working group. Page is at https://confluence.lsstcorp.org/display/DM/Gen3+Middleware+Camera+Specialization+Interfaces
| 2 |
2,714 |
DM-13693
|
03/01/2018 10:59:11
|
Use overload_cast in pybind11 wrappers to simplify wrapping overloaded functions
|
pybind11's overload_cast can be used to simplify the wrapping of overloaded functions. It requires C+14 so we have not used it in the past. Convert astshim as a test case.
| 1 |
2,715 |
DM-13698
|
03/02/2018 09:40:24
|
Update webpack/babel to use env for pollyfills and add webpack-visualizer-plugin
|
Do following: * for webpack/babel to use env for pollyfills * add webpack-visualizer-plugin: Visualize and analyze the Webpack bundle to see which modules are taking up space and which might be duplicates. * experiment with using babel-plugin-lodash to treeshake lodash (_experiment failed, we can't use it_) * remove fftools (we not longer us it)
| 3 |
2,716 |
DM-13734
|
03/08/2018 08:25:53
|
status.lsst.codes ssllabs check broken
|
The nagios {{check-ssl-qualys.rb}} plugin has been broken for 63 days now. It appears that the v2 api is gone and v3 has replaced it. Eg., https://api.ssllabs.com/api/v3/info https://github.com/ssllabs/ssllabs-scan/blob/master/ssllabs-api-docs-v3.md
| 1 |
2,717 |
DM-13739
|
03/08/2018 14:10:13
|
Document github repo configuration
|
In RFC-121 we adopted a policy of protecting master. This ticket is to add that documentation to the developer guide and include the settings needed to ensure that the pull requests are up to date with the base branch (which is our policy).
| 1 |
2,718 |
DM-13746
|
03/09/2018 10:02:23
|
Modernize use of ndarray in astshim pybind11 wrappers
|
Update the usage of ndarray in astshim to simplify the pybind11 wrappers and eliminate build warnings.
| 0.5 |
2,719 |
DM-13747
|
03/09/2018 10:25:50
|
Fix LSST's ndarray .gitignore to ignore build products
|
The current .gitignore in our tarball release of ndarray is wildly inaccurate. Clean it up.
| 0.5 |
2,720 |
DM-13749
|
03/09/2018 11:23:18
|
Include error handling for antlr4 parser
|
Error handling for the new antlr4 parser – specifically for conditions where tree-navigation does not have an error but the query is not sufficiently populated. Hook up a disable able (ifdef?) code that allows the antlr4 caught exception's message to be returned to the user.
| 13 |
2,721 |
DM-13750
|
03/09/2018 12:17:54
|
Move Record printing to C++
|
Current implementation is apparently super slow, and looking at what it's doing (constructing a new dictionary of all fields via {{extract}} just to get one element from it, for every field), I can see why. That could be cleaned up in Python but a lot of it is more naturally and definitely more efficient in C+++,+ and doing that will give us a C++ {{operator<<}}, too, which is nice.
| 0.5 |
2,722 |
DM-13753
|
03/09/2018 13:18:30
|
Enable sphinx doc building in daf_butler
|
Turn on building of sphinx documentation. We already use numpydoc for docstrings but some may need tidying as a result of the documentation actually being built.
| 2 |
2,723 |
DM-13755
|
03/09/2018 15:13:11
|
Make pex_config generate reStructuredText-compatible docstrings
|
We discovered that {{pexConfig}} objects create {{__doc__}} (docstring) attributes automatically based on information passed to configuration constructors. This means that configuration fields are documented in the attributes of configuration classes inside the regular API documentation. This is great, but can also fail if the automatically-generated config field docstring is not reStructuredText/Numpydoc compatible. This ticket is to change the {{__doc__}} generators of {{pexConfig}} fields so that they output Numpydoc/reStructuredText docstrings.
| 1 |
2,724 |
DM-13756
|
03/09/2018 15:25:11
|
Add descriptions to datasets
|
We have no descriptions for the existing butler datasets/exposure types, so nobody knows what they are.
| 1 |
2,725 |
DM-13757
|
03/09/2018 15:44:00
|
enable jointcal config writing
|
There is a block of code in jointcal that disables the persisting of the config and metadata. We should remove that code and add a dataset description for jointcal configs. This is the block in question: {code:java} # We don't need to persist config and metadata at this stage. # In this way, we don't need to put a specific entry in the camera mapper policy file def _getConfigName(self): return None def _getMetadataName(self): return None {code}
| 2 |
2,726 |
DM-13760
|
03/11/2018 19:22:24
|
pipe_analysis needs updates for the wcs dataset name changes
|
Running the visit-level scripts using the current master of {{pipe_analysis}} ({{6b5727d}}) with the {{w_2018_10}} stack gave errors in getting the {{wcs}} dataset. {noformat} Traceback (most recent call last): File "/software/lsstsw/stack3_20171023/stack/miniconda3-4.3.21-10a4fa6/Linux64/pipe_base/14.0-6-ge2c9487+51/python/lsst/pipe/base/cmdLineTask.py", line 408, in __call__ result = task.run(dataRef, **kwargs) File "/home/hchiang2/stack/pipe_analysis/python/lsst/pipe/analysis/visitAnalysis.py", line 215, in run raise RuntimeError("No datasets found for datasetType = {:s}".format(repoInfo.dataset)) RuntimeError: No datasets found for datasetType = wcs {noformat} It needs updates for the dataset name changes of DM-11138.
| 1 |
2,727 |
DM-13762
|
03/12/2018 08:18:18
|
Write up description of DRP current and future test datasets
|
As per this request from [~zivezic]: {quote}We need to understand how much HSC data is processed regularly, is that enough/too much, etc., and where to go from where we are now. Please can you send half a page to a page summary of your DRP-driven recommendations within a few days?{quote}
| 0.5 |
2,728 |
DM-13768
|
03/12/2018 11:29:18
|
Fix firefly_client uploads to work with server on https
|
The Jellybean environment includes a Firefly server with an https url. Uploads are unsuccessful with the current firefly_client. * Fix the upload functions to use the base url in the client * Tag as a bug fix release * Deploy to PyPI for pip installation * Sync to the firefly_client repo on the LSST Github org * In the {{lsst.display.firefly}} backend, remove the {{port}} argument * Change docs and examples for {{lsst.display.firefly}} to remove the {{port}} argument * Substantially shorten the Installation portion of the docs, now that {{lsst.display.firefly}} is included in {{lsst_distrib}}.
| 2 |
2,729 |
DM-13779
|
03/12/2018 18:53:17
|
the indication box for marker on image separates from marker as the size increases
|
* Add a marker on an image, it is annotated as marker #1 * click on the marker, position the cursor at the corner of the indication box to increase the marker size * The distance between the box and the marker increases as the marker size increases * the annotation ends up pretty far from the marker, not very useful any more, especially if there are more than one markers. * See the attachment, "Marker #3" label is closer to the marker circle #2 than to #3. Suggestion: Keep the distance between the marker and the indication box at a fixed number, e.g. 3-5 pixels. Trey added: This issue stands out even more on HiPS displays.
| 1 |
2,730 |
DM-13786
|
03/13/2018 09:59:13
|
'FireflyClient' object has no attribute 'headers'
|
I'm using commit {{bdd25c9}} on the {{DM-13768-https-upload}} branch. I occasionally get the following exception: !image-2018-03-13-09-55-24-833.png! This is with the following code: {code:java} import lsst.afw.display as afw_display afw_display.setDefaultBackend('firefly') my_channel = 'my_test_channel' my_server = 'https://sysengdemo.lsst.codes' display = afw_display.getDisplay(frame=1, host=my_server, port=443, name=my_channel){code} It's not clear to me how to reproduce this. It seems like it is more likely to happen when I've left for a while and come back.
| 0.5 |
2,731 |
DM-13790
|
03/13/2018 15:19:34
|
Remove all use of the geom package
|
Our stack has a very few bits of code that still use the {{geom}} package. In particular they use the {{convexHull}} function. {{geom}} has been superseded by {{sphgeom}} (which is written in C++ instead of python) and contains {{ConvexPolygon.convexHull}}. Update the code, paying careful attention to API differences, if any. This is driven by a desire to repurpose the {{geom}} package for afw geometry primitives (RFC-460) and to retire obsolete and unmaintained code.
| 3 |
2,732 |
DM-13796
|
03/14/2018 09:21:02
|
Fix minor issues in cat schema files
|
Working on DM-13781 I tried to convert baseline schem to YAML and noticed some minor issues in that schema file: * in some comments it uses {{</desc>}} instead of {{</descr>}} * DiaSource index has a name IDX_DiaObject_htmId20 * DiaSource index IDX_DiaSource_filterName refers to non-existing field name Also I need to verify that type of {{flags}} field in DiaForcedSource is correct (TINYINT)
| 1 |
2,733 |
DM-13797
|
03/14/2018 10:19:13
|
Remove the HiPS Grid icon, Always add the HiPS grid layer with checkbox off
|
Remove the HiPS grid icon from the toolbar. Then when a HiPS is added always add the HiPS grid layer with the checkbox turned off so that it is hidden by default. This way a user has access to it without it being on the toolbar. Add support for calling the IRSA hipslist. this involves: - app.config & app.prop - uniq creator_did - if title is blank use creator_did, last parts - irsa.hips.method and irsa.hips.url See also: [https://caltech-ipac.atlassian.net/browse/IRSA-1556#add-comment]
| 3 |
2,734 |
DM-13799
|
03/14/2018 10:34:01
|
Make l1dbprototype work with sqlite
|
For simple tests it's useful to run prototype against local sqlite file. There is some code in prototype that cares about engine type, need to extend it to understand sqlite.
| 2 |
2,735 |
DM-13807
|
03/14/2018 17:25:55
|
Plan API for Shape Algorithm Objects
|
Plan out how best to implement the c++ classes which correspond to equations in [DM-13406|https://jira.lsstcorp.org/browse/DM-13406]
| 2 |
2,736 |
DM-13809
|
03/14/2018 17:35:33
|
Test the implemented Shape optimization algorithm
|
Test the shape optimization algorithm by: * Running the unit tests built during the coding of the algorithm * Optimizing against a known elliptical Gaussian of differing S/N
| 5 |
2,737 |
DM-13821
|
03/15/2018 12:07:04
|
Coordinate sims builds with DM weekly releases
|
The sims team would like to be building their stack on top of a weekly release. Meet with the sims team (Scott Daniel) and iron out the actual needs.
| 2 |
2,738 |
DM-13822
|
03/15/2018 12:15:42
|
Remove python_mysqlclient dependency from obs_lsstSim and obs_sdss
|
The dependency on {{python_mysqlclient}} in {{obs_lsstSim}} is cargo culted from {{obs_sdss}} and should be removed.
| 1 |
2,739 |
DM-13823
|
03/15/2018 13:12:10
|
Remove lsst.utils.multithreading
|
Implementation ticket for RFC-461. Remove {{python/lsst/utils/multithreading/}} and the associated unittests, {{test_sharedData.py}} and {{test_lockProtection.py}}.
| 1 |
2,740 |
DM-13827
|
03/15/2018 15:07:11
|
ScienceSourceSelectorTask is slowly appending to a table when it can simply do the selection
|
ScienceSourceSelectorTask is slowly appending to a table when it can simply do the selection. The loop at https://github.com/lsst/meas_algorithms/blob/f7dca96402cda034104c615be7ef821ab3aa9ea9/python/lsst/meas/algorithms/sourceSelector.py#L451 is unnecessary.
| 0.5 |
2,741 |
DM-13833
|
03/16/2018 14:54:00
|
Update LDM-503 to use lsst-dm/milestones
|
The [lsst-dm/milestones|https://github.com/lsst-dm/milestones] system was created to enable automatic generation of LDM-564 from a single PMCS export. Apply it to LDM-503 as well.
| 1 |
2,742 |
DM-13834
|
03/16/2018 16:23:11
|
Add minimum and maximum lambda to filter properties
|
The DCR correction code needs to know the range of wavelengths permitted through a filter, not just the effective wavelength of the full band. I will add additional properties to `Filter` and define those properties for `obs_lsstSim` and `obs_decam`. Other packages should continue working as normal without being modified.
| 3 |
2,743 |
DM-13835
|
03/16/2018 16:51:25
|
Cannot ingest empty data
|
The {{_doIngest}} and {{_flatBiasIngest}} methods cannot handle empty lists of files to ingest, if such a file is passed in, the program crashes. This is clearly undesirable behavior; it would make more sense for these functions to silently do nothing. Possibly obsolete after DM-13530, since the bug appears to be specific to the placeholder implementation.
| 2 |
2,744 |
DM-13855
|
03/20/2018 14:21:07
|
Make proposal for summary information on HiPS maps to list in selection table
|
Determine which fields from the HiPS {{properties}} files should be reflected in the HiPS-selection table in Firefly.
| 1 |
2,745 |
DM-13861
|
03/21/2018 09:54:02
|
Make L1db spatial indexing more flexible.
|
Current L1DB implementation assumes HTM-20 indexing for DiaObject/DiaSource tables. There is code in L1db class that depends on that when doing region-based selection. It would be better to make this more flexible and client-controlled so that other indexing models could be tested/employed.
| 1 |
2,746 |
DM-13864
|
03/21/2018 11:00:13
|
Submit LSP Test Specification document LDM-540 to DM-CCB for approval
|
Apply final polish and submit.
| 2 |
2,747 |
DM-13865
|
03/21/2018 11:32:41
|
Configure L1DB implementation from pex.config
|
Presently L1db configures itself from INI-style file using Python \{\{ConfigParser}}. For better integration with pipeline tools {{pex.config}} should be used instead.
| 1 |
2,748 |
DM-13870
|
03/22/2018 09:51:38
|
Code clean up - remove xml xstream and old serialization
|
Code clean up - remove xml xstream and old serialization Remove old, unused code. * At one point during the the conversion we had 3 serialization techniques. * We no longer use the XML based xstream code.
| 2 |
2,749 |
DM-13872
|
03/22/2018 11:27:07
|
Title of layer-selection dialog does not change with change of image
|
When the (non-modal) layer-control dialog is visible in Firefly and the selected image is changed "under" that dialog, by clicking in a different image, the _contents_ of the dialog seem to change appropriately, but the image title displayed in the title bar of the dialog is not updated. Observed on {{http://irsadev.ipac.caltech.edu/irsaviewer/}} just now.
| 2 |
2,750 |
DM-13875
|
03/22/2018 12:22:11
|
Assist with L1db integration into AP pipeline
|
l1dbproto should be more or less usable now for actual AP prototyping work. Integration issues related to that will be covered in this ticket.
| 2 |
2,751 |
DM-13878
|
03/22/2018 13:51:50
|
Confirm that ap_verify's documentation is sphinx-buildable
|
{{ap_verify}} added Sphinx documentation before the framework was fully finalized, and used a workaround script to test builds. Its documentation should be reviewed to confirm that it can be built as described in the [documentation hack day instructions|https://community.lsst.org/t/pipelines-package-docs-hack-day-instructions/2742], and any necessary changes made. In particular, {{doc/single-package.sh}} should be removed as obsolete.
| 1 |
2,752 |
DM-13879
|
03/22/2018 14:50:22
|
Include meas_mosaic in lsst_distrib
|
Implement RFC-462. Also update meas_mosaic to optionally depend on obs_subaru.
| 1 |
2,753 |
DM-13886
|
03/23/2018 13:50:25
|
Simplify Transform to contain a Mapping instead of a FrameSet
|
At present {{afw::geom::Transform<FromEndpoint, ToEndpoint>}} contains an {{ast::FrameSet}}, although all it does is transform points, which is what {{ast::Mapping}} is for. As DM-13847 demonstrated, using a FrameSet slows down Transform. The workaround in that ticket was to hold onto both a FrameSet and a Mapping. This ticket is to intended implement a more logical but slightly more invasive solution. I will file an RFC with more explanation.
| 2 |
2,754 |
DM-13897
|
03/26/2018 11:52:58
|
Write up development workflow for jellybean
|
Document the notional development workflow in the JupyterLab environment.
| 3 |
2,755 |
DM-13904
|
03/27/2018 10:10:34
|
Specify Eigen directory in ndarray build
|
An oversight our build script for ndarray can cause it to prefer a non-EUPS Eigen installed in a system include directory over a EUPS-provided Eigen.
| 0.5 |
2,756 |
DM-13907
|
03/27/2018 16:45:04
|
sandbox-stackbuild provisioning fails on DO
|
The DO plugin is able to create droplets but the provisioning fails completely in the same way it used to with the aws plugin. I suspect this is due to changes in the vagrant core over the last 8 months or so. {code:java} $ vagrant up el7 Bringing machine 'el7' up with 'digital_ocean' provider... ==> el7: Using existing SSH key: sqre ==> el7: Creating a new droplet... ==> el7: Assigned IP address: 104.131.24.185 ==> el7: Modifying sudoers file to remove tty requirement... ==> el7: Creating user account: vagrant... No host IP was given to the Vagrant core NFS helper. This is an internal error that should be reported as a bug.{code} There is an upstream issue but this will be easier as a configuration fix. https://github.com/devopsgroup-io/vagrant-digitalocean/issues/271
| 1 |
2,757 |
DM-13919
|
03/28/2018 17:54:02
|
Add arcminute-scale range to HiPS image FoV display
|
In the current irsadev version of the HiPS viewer, it appears that the FOV display is either in degrees or in arcseconds, represented by the '°' and '"' symbols, respectively. It does not have an intermediate display of arcminutes. Before we go on to apply this to all image viewers, not just HiPS, we should agree on what we want. Personally I would go for adding the intermediate layer. I find it a bit odd to see " 2711" " as a field of view, instead of " 45' ". Also in other Firefly and IRSA application contexts, such as the _selection_ of a field of view, the arcminute option is presented. The same logic should apply consistently throughout the Firefly world, I think. Specifically: when the value is between 1 and 59 arcmin, display it as arcmin (with the ' symbol) with two digits of precision, i.e, as 1.0' through 9.9' or 10' through 59'. But if there is existing practice for something slightly different elsewhere in Firefly, it would be reasonable to re-use existing behavior. Derives from IRSA-1606 and IRSA-1628. Aimed at the May 2018 release.
| 2 |
2,758 |
DM-13945
|
03/29/2018 19:03:44
|
newinstall.sh could do a better job of reporting missing commands
|
Notably, {{newintall.sh}} will without informative messages to the end user if certain commands are not available in the path. Eg., * the miniconda installer internal uses {{bzip2}} * the eups build needs {{make}} and a c compiler
| 0.5 |
2,759 |
DM-13950
|
03/30/2018 12:14:00
|
Convert assembleCoadd.py to numpydoc
|
Finish porting pipe_tasks docs from doxygen to numpydocs following Jonathan Sick's hack day instructions.
| 2 |
2,760 |
DM-13961
|
03/30/2018 18:33:22
|
Run KPM30 tests at IN2P3
|
Run KPM30 tests on LSST30 data on the lower half of IN2P3.
| 13 |
2,761 |
DM-13969
|
04/02/2018 15:53:41
|
Resolve implied dependency of cp_pipe on eotest
|
It turns out that {{cp_pipe}} has an implicit dependence on {{eotest}}. Please resolve the dependence by including it in the table file. This may also involve moving it into either {{lsst-dm}} or {{lsst}}.
| 0.5 |
2,762 |
DM-13976
|
04/02/2018 17:43:07
|
Rename jointcal.gtransfo
|
jointcal's {{Gtransfo}} object (a mutable 2->2 transform designed for astrometry and optimized for being fit) should have a name that better matches our standards. I created {{PhotometryTransform}}, so I suppose an appropriate new name might be {{AstrometryTransform}}?
| 2 |
2,763 |
DM-13979
|
04/03/2018 07:04:44
|
Remove dependency on qserv-run-dir
|
qserv-run-dir and qserv-configure will no more be used in k8s setup.
| 8 |
2,764 |
DM-13989
|
04/03/2018 16:59:45
|
fixed hips cube issues and honor some HiPS properties
|
_Do the following:_ # Cubes: fixed the bugs related to moving between HiPS cubes and regular hips # Cubes: display the correct current plane number and the total plane number when switching between HiPS cube # Cubes: honor the data_cube_* properties and show information about the 3rd dimension ** Use: {{value = crval3 + (cubeIdx - crpix3 ) * cdelt3}} # Make field of view and target optional and then, if they are not specified by the user, default to the HiPS properties {{hips_initial_ra}}, {{hips_initial_dec}}, and {{hips_initial_fov}}. If neither are available show 180 degrees at 0,0.
| 2 |
2,765 |
DM-13997
|
04/04/2018 13:16:57
|
Enable numpydoc support for ip_isr
|
This ticket is to enable the numpydoc conversion of ip_isr.
| 0.5 |
2,766 |
DM-13998
|
04/04/2018 14:04:22
|
Enable automatic flake8 testing in skymap
|
Enable flake8 testing in skymap
| 0.5 |
2,767 |
DM-14001
|
04/04/2018 15:01:06
|
Make afw PEP8 compliant and enable auto testing
|
Fix PEP8 warnings and enable automatic testing by scons and by Travis on github. I also fixed the Doxygen warnings, as the warnings about duplicate section names were showing up when building other packages, which was very annoying. One change was to stop Doxygen from scanning any C++ source files in {{src/...}}. I moved the Doxygen documentation from files to the headers long ago, and scanning the source was a frequent cause of spurious Doxygen warnings.
| 1 |
2,768 |
DM-14004
|
04/04/2018 16:46:16
|
Make astshim compliant with the -pedantic compiler flag
|
astshim has a few C++ violations that are exposed using the {{-pedantic}} flag with the C++ compiler. Fix them.
| 0.5 |
2,769 |
DM-14007
|
04/04/2018 21:34:07
|
Fix py2 linter error in skymap
|
Fix the following python 2 error: {code} /home/jenkins-slave/workspace/stack-os-matrix/centos-7.py2/lsstsw/build/skymap/examples/plotSkyMap.py:189:69: F812 list comprehension redefines 'x' from line 180 /home/jenkins-slave/workspace/stack-os-matrix/centos-7.py2/lsstsw/build/skymap/examples/plotSkyMap.py:189:72: F812 list comprehension redefines 'y' from line 180 {code}
| 0 |
2,770 |
DM-14008
|
04/05/2018 09:40:04
|
Enable TransmissionCurve coaddition for HSC
|
This should be disabled for most cameras, but we should definitely be running it for HSC.
| 0.5 |
2,771 |
DM-14012
|
04/05/2018 12:35:44
|
Add helper container class supporting topologically sorted iteration over elements
|
Add a {{ConnectedSet}} helper (name optional) that allows for insertion of elements and connections and iteration over them in topologically sorted order.
| 1 |
2,772 |
DM-14014
|
04/05/2018 13:02:47
|
Remove "Keyword assignment operators SHOULD be surrounded by a space..." from the Python style guide
|
Implement RFC-471 by removing this [rule|https://developer.lsst.io/python/style.html#keyword-assignment-operators-should-be-surrounded-by-a-space-when-statements-appear-on-multiple-lines] from the Python style guide: Keyword assignment operators SHOULD be surrounded by a space when statements appear on multiple lines we are using PEP8 instead and flake8 will enforce it Also remove E251 from any list that suggests it as a rule to ignore
| 0.5 |
2,773 |
DM-14019
|
04/05/2018 16:47:15
|
Allow ap_pipe to skip association
|
Once {{ap_association}} supports it, {{ap_pipe}} should query the association database to see if a dataId has already been processed. This will allow {{ap_pipe}} to skip all processing steps that have already been performed.
| 1 |
2,774 |
DM-14024
|
04/06/2018 09:01:46
|
Study current cluster setup scripts
|
Study the current OpenStack cluster setup scripts to plan refactoring * Use shade instead of nova,cinder and other low-level openstack python clients * Remove deprecated bare metal commands
| 2 |
2,775 |
DM-14029
|
04/06/2018 10:44:12
|
Improve table parsing and memory usage
|
Refactor DataGroup * DataGroup was written a long time ago as a table model to represent and manipulate tabular data. Over the years is has gotten bulky and complicated. Refactor it with emphasis on memory footprint and larger data set. Table parsing * Look into ways to improve table parsing, especially IPAC tables.
| 5 |
2,776 |
DM-14046
|
04/09/2018 13:12:48
|
Cache HiPS list and properties search result
|
In order to optimize the search of HiPS list and properties, create a method to cache the search result. The search result will be re-used repeatedly for any coming query and only be updated when the server have made any modification.
| 1 |
2,777 |
DM-14064
|
04/11/2018 09:20:56
|
lsst_dm_stack_demo failing with: ./bin/demo.sh: No such file or directory
|
There are multiple reports on #dm-square this morning of the stack demo failing on same {{stack-os-matrix}} configurations with errors similar to: {code:java} /home/jenkins-slave/workspace/science-pipelines/lsst_distrib/centos-6.py3/ci-scripts/runManifestDemo.sh: line 210: ./bin/demo.sh: No such file or directory {code} The clean build of of {{lsst_distrib}} failed all configurations but had been passing for several days prior: https://ci.lsst.codes/blue/organizations/jenkins/science-pipelines%2Flsst_distrib/detail/lsst_distrib/211/pipeline There have been no changes merged to either https://github.com/lsst/lsst_dm_stack_demo or https://github.com/lsst-sqre/ci-scripts/blob/master/runManifestDemo.sh in the last couple of days.
| 1 |
2,778 |
DM-14069
|
04/11/2018 13:11:59
|
Update igprof on LSST (and Princeton) systems
|
Per DM-14060, please install the new version of igprof on: - All four lsst-dev stacks; - Both Princeton Tiger stacks; - Both Princeton Perseus stacks.
| 1 |
2,779 |
DM-14072
|
04/11/2018 17:15:32
|
Add getCutout method to Exposure
|
There are many instances when it would be helpful to have a simple way to return a postage stamp, or small cutout, of an exposure with some user-specified center and dimensions. This ticket is to create such a method, ideally in C++. A preliminary python implementation lives in {{u/mrawls/exposure-cutout}}.
| 1 |
2,780 |
DM-14074
|
04/11/2018 20:00:37
|
Check Firefly access to the amiga.iaa.es HiPS maps
|
Determine, on {{irsadev}} (which is why I can't do this now, because I'm offsite), whether the current Firefly HiPS code displays the http://amiga.iaa.es/hipslist maps in its index, and (whether or not they are in the index) whether it can display them.
| 1 |
2,781 |
DM-14075
|
04/11/2018 20:32:39
|
Exclude bad mask plane in nImage for filtering artifact candidates
|
Symptom: Artifact candidates are being clipped when there not sufficient epochs remaining to do so. Cause: A crude N-Image is passed to filterArtifacts to compute the maximum number of epochs a candidate can appear in and be clipped. If there are < 3 epochs it's zero. (i.e nothing should be clipped). This N-Image is too crude. The actual N-Image can be lower due to recorded chip defects (everything in the bad mask plane). NOTE: This only affects coadds with small numbers of epochs
| 1 |
2,782 |
DM-14079
|
04/12/2018 09:25:03
|
Add file logging to albuquery, aka dax db/metserv v1
|
Need to add file logging to persist logs for debugging and tracking, as the default is going to console.
| 3 |
2,783 |
DM-14082
|
04/12/2018 15:06:20
|
Update alert_stream for sims data
|
Current alert_stream repo uses only a single template alert. We want to change this to be able to send and receive sims data, for use in filtering and for the end-to-end prototype.
| 0.5 |
2,784 |
DM-14103
|
04/13/2018 16:02:19
|
Cleanup code related to the coordinate grid that slow down the application
|
i was testing and trying the feature ‘match image to hips’ so i had 1 image and 1 hips map displayed. When i tried to overlay a grid on FITS image, the browser slow down and sometimes i have to reload the page. It looks to me that there is still a link between applying grid to hips that is not didabled once i removed but button form the toolbar for hips.
| 2 |
2,785 |
DM-14115
|
04/16/2018 12:58:07
|
ap_verify's metrics-file command-line argument not documented
|
Following DM-13042, {{ap_verify}} takes the {{\-\-metrics-file}} command-line argument to override metrics output behavior. However, the ticket neglected to add documentation for this argument. Add a section to {{ap_verify}}'s command-line argument reference describing {{\-\-metrics-file}} and its intended use.
| 1 |
2,786 |
DM-14116
|
04/16/2018 14:58:12
|
Learn how to rerun command-line drivers on lsst-dev
|
Yusra showed me how to source the latest weekly build of the pipeline and running command-line tasks on HSC data on lsst-dev, e.g.: source scl_source enable devtoolset-6; source /software/lsstsw/stack3/loadLSST.bash setup lsst_distrib -t w_2018_14 # For that week mkdir /project/dtaranu/cmodelconfigs/ multiBandDriver.py /datasets/hsc/repo --calib /datasets/hsc/repo/CALIB/ --rerun RC/w_2018_14/DM-13890:private/dtaranu/cmodelconfigs/w_2018_14 --id tract=9813 patch=3,4 filter=HSC-G^HSC-R^HSC-I^HSC-Z^HSC-Y^NB0921
| 2 |
2,787 |
DM-14118
|
04/16/2018 16:06:55
|
Create Jupyter notebook summarizing cModel config results
|
This notebook is to summarize the effects of changing the number of Gaussians in the initial fitting in the cModel task. This includes running through the Jupyter workflow on lsst-dev, using the data butler, remembering how to process/plot data with Python and forgetting about R. The notebook is currently at lsst-dev:/home/dtaranu/src/mine/cModelConfigs.ipynb and I will likely add it to a sensibly-named repository on lsst-dm.
| 2 |
2,788 |
DM-14125
|
04/17/2018 15:06:22
|
Remove pre-multitrace chart code and server-side expressions
|
Remove chart code supporting unused pre-multitrace architecture and server-side expressions. Update the documentation for showChart parameters.
| 5 |
2,789 |
DM-14128
|
04/18/2018 01:22:03
|
Fix Qserv container builds
|
Recent change to admin/tools/docker/1_build-image.sh seems to have broken automated Qserv container builds
| 0.5 |
2,790 |
DM-14129
|
04/18/2018 05:56:48
|
Fix AuxDevice multiple forwarder issue discovered at April 4th Pathfinder
|
This recent Pathfinder activity was the first activity where the AuxDevice was incorporated into the DM L1 code. The AuxDevice specifically handles tasks on the Auxiliary telescope. During the activity, it was discovered that the component was not handling forwarder fully qualified names properly. The fix during the exercise was to configure the device to use only one forwarder with no spare. This fix allows an arbitrary number to be used - which is how all of the commandable devices behave.
| 2 |
2,791 |
DM-14133
|
04/18/2018 13:18:46
|
Enable Sphinx support for meas_astrom
|
Add Sphinx support to meas_astrom package.
| 5 |
2,792 |
DM-14134
|
04/18/2018 13:31:26
|
Enable Sphinx support for ip_diffim
|
Enables Sphinx support by uncommenting `automodapi` and fixing the errors and warnings.
| 1 |
2,793 |
DM-14135
|
04/18/2018 13:33:44
|
Convert afw.geom to numpydoc
|
Convert {{lsst.afw.geom}}'s Python to Numpydoc, following the guidelines on [community|https://community.lsst.org/t/2760].
| 1 |
2,794 |
DM-14152
|
04/19/2018 15:29:59
|
Investigate the spatial distribution of failed cModel fits
|
A significant fraction of sources in HSC-R tract 9813 patch 3,4 have failed initial cModel fits (2.3% nan flux/objective, 10.2% negative flux), while 5.1% of dev/exp fits have nan flux/objective. After learning how to use the butler to display in ds9, I found that these failures come from a combination of sources near the edge of a patch, in/near the halos/diffraction spikes of bright stars, or from difficult/failed deblends, in roughly that order. I did not find any surprising failures - all of the failures also set a seemingly sensible failure flag. The attached plot can be generated by the notebook created in DM-14118 (lsst-dev:/home/dtaranu/src/mine/taranu_lsst/cModelConfigs.ipynb).
| 1 |
2,795 |
DM-14153
|
04/19/2018 15:32:02
|
Add warn messages for too few meas/ref sources per ccd
|
After every outer outlier rejection loop, we should check the number of reference and measured sources per ccd, and issue a warning if they get too small (where "small" is defined by a config parameter).
| 2 |
2,796 |
DM-14154
|
04/19/2018 16:34:54
|
Setting up a Qserv and Replication cluster at IN2P3
|
Set up a testing environment combining Qserv + the Replication system in the upper part of the IN2P3 cluster. This included the following nodes: * *ccqserv125*: Qserv _czar_ and the Replication System's _controller_ * *ccqserv126* - *ccqserv149*: Qserv _worker_ servers and the Replication System's _worker agents_ Configure Qserv to use a separate set of ports and to use a separate data directories to avoid direct conflicts with the main stream (other) Qserv installation. Preload the cluster with 1/6th of the following catalogs which are (as of now) being deployed at the NCSA's PDAC Qserv Cluster: * *sdss_stripe82_01* * *wise_00* The data will be copied from the first 5 _worker_ nodes of that (source) cluster: * *lsst-qserv-db01* - *lsst-qserv-db05* The total amount of data to be transgferred from those 5 nodes is: *3.7 TB* Extra actions to be taken in a context of this ticket will also include: * building and deploying a specially configured version of the Qserv Docker container (to allow separate ports) * packaging tools of the Replication systems into a separate container to be deployed at teh new cluster * develop simple set of the management tools for starting/stopping the Replication System's services Port number modifications in container image *qserv/qserv:tickets_DM-10424*: {code:bash} % cat admin/templates/installation/qserv-meta.conf # Port number for worker management service port = 25012 # Port number for cmsd server (not used in mono setup) cmsd_manager_port = 22131 # Port number for xrootd server xrootd_port = 21094 # Port number for mysql-proxy, this is the primary interface for qserv clients port = 24040 # Port number for mysql server port = 23306 {code} Data directories for the Qserv instance: {code} /qserv/replication/ /qserv/replication/data/ /qserv/replication/log/ /qserv/replication/tmp/ {code}
| 8 |
2,797 |
DM-14155
|
04/19/2018 17:30:37
|
Experiment with other source selectors for photometry
|
The photometry failures may be related to not having"appropriate" reference stars. I should try a few other source selectors, starting with the {{flaggedStarSelector}} (which uses bright PSF sources), to see if they are a better match than the astrometrySourceSelector. I'll want to be able to count measuredStars (i.e. DM-14153) in order to tell whether the new source selector is picking enough sources to be useful.
| 2 |
2,798 |
DM-14159
|
04/20/2018 08:10:50
|
Wrap matplotlib use in meas_mosaic
|
{{meas.mosaic.utils}} does a module-level import of matplotlib and sets the backend to {{Agg}}. a) Specifically the [{{matplotlib.use("Agg")}}|https://github.com/lsst/meas_mosaic/blob/master/python/lsst/meas/mosaic/utils.py#L30] line should be removed. It has no effect if the user has already loaded a backend, and spews a big chunk of distracting warnings. b) The overall import of matplotlib should not happen at the module level, because that code gets run when importing the module. Importing the module happens even just opening a Butler object view to the repo. Specifically, meas_mosaic gets imported by just the following code. {code} import os import lsst.afw.display as afwDisplay from lsst.daf.persistence import Butler repo = os.getenv('REPO') butler = Butler(repo) {code} Philosophically I don't believe that opening a Butler should trigger setting up matplotlib. Editorial: I believe that all plotting imports should be protected and separated from the data analysis. But this implies a refactoring that may not be justified given the imminent replacement by jointcal
| 0.5 |
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