~dnamurphy/orca/trunk : changes

~dnamurphy/orca/trunk » Changes from revision 236

From Revision 235 to 216

Rev	Summary	Authors	Date
235	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: - fixed more python bugs when running the test ATLAS/GAMA G23 field ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	5 years ago
234	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: - fixed python bugs, now runs to completion for test data ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	5 years ago
233	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: - parallel_qhull.qhullv2(): improved bounding box implementation - parallel_detect.parallel_detect(): set bounding default to ENABLED! Will need to be disabled via cfg override ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy, CASU	6 years ago
232	Update from @monolith Update from @monolith * New methods: - detections.to_aladin(): transmits detection class to an Aladin instance via SAMP * Updated methods/modules: - galaxies.__init__(): fix calculating flux (set to zero) for NaN magnitudes when using permit_dropouts - detections.accelerate(): fix to ignore a permit_dropouts sanity check when the depth_mod (mag_mod) is used (problems with same detection class hosting clusters from different CMR selections due to changing mag limits) ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy, CASU	6 years ago
231	Update from @laptop (Durham visit v2) Update from @laptop (Durham visit v2) * New methods: * Updated methods/modules: -cluster.cmr(): more handling of NaNs for permit_dropouts -cluster.match(): handles "None" return where cm20 calculation is not possible (again, permit_dropouts) -cluster.rotate(): m,c --> c,m bug fix ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	6 years ago
230	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: -detection.cmr(): Fix to handle NaNs when calculating colour distribution for spread in colour (for exploration in 2nd colour) ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy, CASU	6 years ago
229	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: - pp.py was missing from lib - re-added, hopefully will solve import issues. ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy, CASU	6 years ago
228	Update from @laptop (Durham visit) Update from @laptop (Durham visit) * New methods: -clusters.get_colours_mags(): a convenience function that returns the colours and magnitudes of the galaxies, filtering out any NaN that may arise from using the multi_survey=True flag. -detections.to_vstcutouts(): output the cluster positions in the format used to generate cutout images from Chile * Updated methods/modules: -cluster.print_info(): SDSS url updated to DR12 -dataIO.getData(): added "permit dropouts" implementation (previously "multi_survey") that should allow inhomogeneous input photometry - ie, where a galaxy can have unmeasured flux in one (or more) bands. -detection.accelerate(): properly implemented "permit dropouts", to allow the survival of clusters through into the 2nd detection stage if they stand no chance of being selected due to missing galaxy magnitudes. ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	6 years ago
227	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: -detection.to_fits(): fixed stupid keyname contamination where galcat_extras variables are adopted for cluster objects ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	8 years ago
226	Update from @monolith Update from @monolith * New methods: * Updated methods/modules: -detection.to_fits(): fixed stupid keyname contamination where galcat_extras variables are adopted for cluster objects ***Known/Unresolved issues: - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	8 years ago
225	Minor update following test on @monolith Minor update following test on @monolith	David Murphy	8 years ago
224	Update from @cosma-a Update from @cosma-a ORCA parallel python updated to 1.6.4. NB - change to pp.py wrt supplied version * New methods: * Updated methods/modules: -cluster.img_name(): ported code from thumbs.survey() class to this method to prevent superflous call. This stops a hanging subprocess in tools.whereis() that would hold up parallel worker nodes -detect_rapid(): improved logic to "showstopper" for qhull / rbox checks ***Known/Unresolved issues: - [potentially] fixed long-standing communication issue with hanging workers in pp - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	8 years ago
223	Small tweak in detect_rapid Small tweak in detect_rapid	David Murphy	8 years ago
222	Update from root branch @laptop Update from root branch @laptop qhul * New methods: -tools.md5file(): returns the MD5 hash of the file supplied * Updated methods/modules: -dataIO.getData(): added an md5 hashing of the source fits file to the selection dictionary (for checking where source data are updated / changed) -detect_rapid(): added "showstoper" for non-functioning qhull/rbox binaries, orca.cfg can store binary locs -parallel_vertices.d_v(): fixed for dict-key qhull switch changes in parallel_qhull.qhullv2() -parallel_qhull.qhullv2(): qhull and rbox locations defer first to orca.cfg, then tools.whereis() ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	8 years ago
221	Update from root branch @spengler Update from root branch @spengler * Zero-warranty release * This release comes with no update log, nor verified functionality beyond the immediate. The next release will document changes and come with all features correctly working. * New methods: * Updated methods/modules: ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	8 years ago
220	Update from root branch @spengler Update from root branch @spengler * Zero-warranty release * This release comes with no update log, nor verified functionality beyond the immediate. The next release will document changes and come with all features correctly working. * New methods: * Updated methods/modules: ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	David Murphy	8 years ago
219	Update from root branch @laptop Update from root branch @laptop * New methods: -tools.element_area(): proper calculation of surface area of elemment based on integral. Made adjustments to all code determining areas -detections.to_fits(): write detection file to .fits format, also galaxies to 2nd fits file -lpcheckout.py: Launchpad distributor with test-data option * Updated methods/modules: -clusters.plot():allow legend addition and linewidth changes (down and up hierarchy) -dataIO.getData(): more tolerance to .cfg entries with trigger keywords like <grid> -detections: created __getitem__ for direct access to clusters - eg det[12] -clusters: created __getitem__ for direct access to galaxies - eg cl[4] -detections.compare(): allow ORCA det file as input -detections.co_det(): for snapshot mode, override for CMR search width in next colour ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	8 years ago
218	Update from root branch @laptop Update from root branch @laptop * New methods: -tools.element_area(): proper calculation of surface area of elemment based on integral. Made adjustments to all code determining areas * Updated methods/modules: -vertex_list.area(): added element_area() call where required ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	9 years ago
217	Update from root branch @laptop Update from root branch @laptop * New methods: * Updated methods/modules: -dataIO.py: small bugfix to reflect move of fits_table.py from lib to base directory ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	9 years ago
216	Update from root branch @laptop Update from root branch @laptop * New methods: * Updated methods/modules: -dataIO.py: small bugfix to reflect move of fits_table.py from lib to base directory ***Known/Unresolved issues: - what is the difference between A2631 and A2631_evo? use orca.cfg to stipulate directly the cluster? - implement improved controlled-exception raising for run() in detect_rapid() - additional vertices are often replicated for no reason in galaxies.vertex_list.verts. This may disappear from this release onwards, but will monitor. - interaction.py: Needs to know about basis colours for getGalaxyCMR, cross clicking in panel (CMR-(RA,DEC)) broken plot_bcg and plot_centre flags should be integrated in interaction environment - detections.py/tools.py: excess nesting of chooser grid data in source grids for DR7 (stripes?) re-generate and remove caveats that have had to be applied (keeping std-out messages for reference...)	dnmaurphy at gmail	9 years ago

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