[us-commits] [ehb54/ultrascan3] 000572: Bump version to 4.1.0
alexsav815
noreply at github.com
Mon Jun 29 11:25:26 MDT 2026
Branch: refs/heads/alexey-dev-issue892
Home: https://github.com/ehb54/ultrascan3
Commit: 000572b4470833c4cd55dc8c07bfe30eadfb08f0
https://github.com/ehb54/ultrascan3/commit/000572b4470833c4cd55dc8c07bfe30eadfb08f0
Author: github-actions[bot] <github-actions[bot]@users.noreply.github.com>
Date: 2026-01-24 (Sat, 24 Jan 2026)
Changed paths:
A VERSION
M utils/us_defines.h
Log Message:
-----------
Bump version to 4.1.0
Commit: 63ddc08f86dd138595c248e3ec8653b3e4640132
https://github.com/ehb54/ultrascan3/commit/63ddc08f86dd138595c248e3ec8653b3e4640132
Author: ehb <ehb at ehbs-MacBook-Pro.local>
Date: 2026-02-25 (Wed, 25 Feb 2026)
Changed paths:
M gui/libus_gui.pro
Log Message:
-----------
restore macx:LIBS, expected for OSX package pipeline
Commit: 42f2fd0ef0f999defd30ec52c17df8d7acf8ccef
https://github.com/ehb54/ultrascan3/commit/42f2fd0ef0f999defd30ec52c17df8d7acf8ccef
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-02-25 (Wed, 25 Feb 2026)
Changed paths:
M gui/libus_gui.pro
Log Message:
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add VER to qwtplot3d
Commit: 04bc610b180db0057d777dd09625732e535d15d1
https://github.com/ehb54/ultrascan3/commit/04bc610b180db0057d777dd09625732e535d15d1
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M programs/us_protocol_dev/us_protocol_dev_gui.cpp
Log Message:
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Protocol-Developer: remove v.0,1 from the window title ...
Commit: aabf6395ab17f75fe98ee8a1856d0df8163ac5a0
https://github.com/ehb54/ultrascan3/commit/aabf6395ab17f75fe98ee8a1856d0df8163ac5a0
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M programs/us_protocol_dev/us_protocol_dev_gui.cpp
Log Message:
-----------
Merge pull request #442 from ehb54/alexey-dev-issue890
Protocol-Developer: remove v.0,1 from the window title ...
Commit: c01e1313f848d52ba4e9f5c91129eac8c54f2b4d
https://github.com/ehb54/ultrascan3/commit/c01e1313f848d52ba4e9f5c91129eac8c54f2b4d
Author: aaron-auc <aaron at aucsolutions.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M .github/workflows/bump-version.yml
Log Message:
-----------
fix: Update bump PR commit SHA in workflow configuration
Commit: 52cc7dc3a6bb04f611fd929cf3e9a34d8ff69e1c
https://github.com/ehb54/ultrascan3/commit/52cc7dc3a6bb04f611fd929cf3e9a34d8ff69e1c
Author: aaron-auc <95181880+aaron-auc at users.noreply.github.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M .github/workflows/bump-version.yml
Log Message:
-----------
Merge pull request #444 from ehb54/898-update-bump-pr-commit-sha-ultrascan3
Update workflow configuration for commit SHA bump
Commit: bbe49a767b0802c2c444243ec79fb5dbeeaf2d14
https://github.com/ehb54/ultrascan3/commit/bbe49a767b0802c2c444243ec79fb5dbeeaf2d14
Author: aaron-auc <95181880+aaron-auc at users.noreply.github.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
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A doc/manual/source/astfem_sim.rst
A doc/manual/source/auto_index.py
A doc/manual/source/beckman_openauc.rst
A doc/manual/source/buffer/buffer_edit.rst
A doc/manual/source/buffer/buffer_new.rst
A doc/manual/source/buffer/buffer_select.rst
A doc/manual/source/buffer/buffer_settings.rst
A doc/manual/source/buffer/index.rst
A doc/manual/source/buoyancy_editor.rst
A doc/manual/source/colorgradient.rst
A doc/manual/source/combine_models.rst
A doc/manual/source/common_dialogs.rst
A doc/manual/source/components.rst
A doc/manual/source/conf.py
A doc/manual/source/config.rst
A doc/manual/source/convert.rst
A doc/manual/source/ddist_combine.rst
A doc/manual/source/dens_match.rst
A doc/manual/source/dmga_init.rst
A doc/manual/source/dmga_init_constr.rst
A doc/manual/source/experiment/cells.rst
A doc/manual/source/experiment/general.rst
A doc/manual/source/experiment/import.rst
A doc/manual/source/experiment/index.rst
A doc/manual/source/experiment/liveupdate.rst
A doc/manual/source/experiment/optics.rst
A doc/manual/source/experiment/range.rst
A doc/manual/source/experiment/rotor.rst
A doc/manual/source/experiment/solutions.rst
A doc/manual/source/experiment/speeds.rst
A doc/manual/source/experiment/submit.rst
A doc/manual/source/export_legacy.rst
A doc/manual/source/fe_match/fe_dmga_adv.rst
A doc/manual/source/fe_match/fe_match_adv.rst
A doc/manual/source/fe_match/fe_match_main.rst
A doc/manual/source/fe_match/fe_match_simulate.rst
A doc/manual/source/fe_match/index.rst
A doc/manual/source/fit_meniscus.rst
A doc/manual/source/ga_initialize.rst
A doc/manual/source/global_equil.rst
A doc/manual/source/gmp/gmp.rst
A doc/manual/source/gmp/gmp_audit_trail.rst
A doc/manual/source/gmp/gmp_automation.rst
A doc/manual/source/gmp/gmp_data_acquisition/gmp_data_acquisition_experiment.rst
A doc/manual/source/gmp/gmp_data_acquisition/gmp_data_acquisition_gmp.rst
A doc/manual/source/gmp/gmp_data_acquisition/index.rst
A doc/manual/source/gmp/gmp_protocol_development.rst
A doc/manual/source/gmp/gmp_report_generator.rst
A doc/manual/source/gmp/gmp_signature.rst
A doc/manual/source/gmp/index.rst
A doc/manual/source/grid_editor.rst
A doc/manual/source/idist_combine.rst
A doc/manual/source/index.rst
A doc/manual/source/manage_data.rst
A doc/manual/source/model_editor.rst
A doc/manual/source/multi-wavelength/index.rst
A doc/manual/source/multi-wavelength/mwl_species_fit.rst
A doc/manual/source/multi-wavelength/mwl_species_sim.rst
A doc/manual/source/multi-wavelength/mwl_spectra.rst
A doc/manual/source/multi-wavelength/mwlr_viewer.rst
A doc/manual/source/pcsa/index.rst
A doc/manual/source/pcsa/load_modelrecs.rst
A doc/manual/source/pcsa/pcsa.rst
A doc/manual/source/pcsa/pcsa_adv.rst
A doc/manual/source/pcsa/pcsa_analys.rst
A doc/manual/source/pcsa/pcsa_mlines.rst
A doc/manual/source/pcsa/pcsa_results.rst
A doc/manual/source/pcsa/pcsa_rpscan.rst
A doc/manual/source/predict1.rst
A doc/manual/source/predict2.rst
A doc/manual/source/pseudo3d.rst
A doc/manual/source/ramp_data.rst
A doc/manual/source/register.rst
A doc/manual/source/reporter.rst
A doc/manual/source/requirements.txt
A doc/manual/source/rmsd_query.rst
A doc/manual/source/rotor_calibration.rst
A doc/manual/source/rotors.rst
A doc/manual/source/run_details.rst
A doc/manual/source/sassoc.rst
A doc/manual/source/second_moment.rst
A doc/manual/source/simparams.rst
A doc/manual/source/solutions/index.rst
A doc/manual/source/solutions/solution_edit.rst
A doc/manual/source/solutions/solution_new.rst
A doc/manual/source/solutions/solution_select.rst
A doc/manual/source/solutions/solution_settings.rst
A doc/manual/source/start_page-abde.rst
A doc/manual/source/start_page-dm.rst
A doc/manual/source/start_page-int.rst
A doc/manual/source/start_page-mw.rst
A doc/manual/source/start_page-new.rst
A doc/manual/source/start_page-rpt.rst
A doc/manual/source/start_page.rst
A doc/manual/source/time_derivative.rst
A doc/manual/source/tmst_viewer.rst
A doc/manual/source/us_administrator.rst
A doc/manual/source/us_buoyancy.rst
A doc/manual/source/us_edit.rst
A doc/manual/source/us_equiltime.rst
A doc/manual/source/us_extinction.rst
A doc/manual/source/us_fds_filemanager.rst
A doc/manual/source/us_investigator.rst
A doc/manual/source/us_modelmetrics.rst
A doc/manual/source/us_project.rst
A doc/manual/source/us_spectrum.rst
A doc/manual/source/vhw_combine.rst
A doc/manual/source/vhw_distrib_plot.rst
A doc/manual/source/vhw_enhanced.rst
A doc/manual/source/xpn_viewer.rst
R doc/manual/template.img.body
R doc/manual/tidy.conf
R doc/manual/time_derivative.body
R doc/manual/ultrascan3.txt
R doc/manual/us_buffer.body
R doc/manual/us_edit.body
R doc/manual/us_edit_mwl.body
R doc/manual/us_equiltime.body
R doc/manual/us_fds_filemanager.body
R doc/manual/us_investigator.body
R doc/manual/us_modelmetrics.body
R doc/manual/us_project.body
R doc/manual/us_solution.body
R doc/manual/uscol.body
R doc/manual/uscolor2.body
R doc/manual/usfont.body
R doc/manual/usfont2.body
R doc/manual/vhw_combine.body
R doc/manual/vhw_distrib_plot.body
R doc/manual/vhw_enhanced.body
R doc/manual/wrapped-images.lst
M etc/etc_belongs_list.txt
A etc/icons/make-icons.sh
A etc/icons/us3-icon-master-512.png
R etc/us3-GMP-icon-128x128.ico
M etc/us3-GMP-icon-128x128.png
R etc/us3-GMP-icon-128x128.xpm
R etc/us3-GMP-icon-32x32.ico
R etc/us3-GMP-icon-32x32.png
R etc/us3-GMP-icon-32x32.xpm
R etc/us3-GMP-icon-48x48.ico
R etc/us3-GMP-icon-48x48.png
R etc/us3-GMP-icon-48x48.xpm
M etc/us3-icon-128x128.ico
M etc/us3-icon-128x128.png
M etc/us3-icon-32x32.png
M etc/us3-icon-48x48.ico
M etc/us3-icon-48x48.png
M etc/us3-icon.icns
M gui/CMakeLists.txt
M gui/images/us3-icon-128x128.png
M gui/images/us3-icon-16x16.png
M gui/images/us3-icon-256x256.png
M gui/images/us3-icon-32x32.png
M gui/images/us3-icon-48x48.png
M gui/images/us3-icon-512x512.png
M gui/images/us3-icon-64x64.png
M gui/libus_gui.pro
M gui/us_abstractrotor_gui.h
M gui/us_analysis_base2.cpp
M gui/us_analysis_base2.h
M gui/us_analyte_gui.cpp
M gui/us_analyte_gui.h
M gui/us_buffer_gui.cpp
M gui/us_buffer_gui.h
M gui/us_convert_gui.cpp
M gui/us_convert_gui.h
M gui/us_csv_loader.cpp
M gui/us_data_loader.h
M gui/us_experiment_gui.h
M gui/us_extinction_gui.cpp
M gui/us_extinction_gui.h
M gui/us_get_run.h
M gui/us_help.cpp
M gui/us_load_auc.h
M gui/us_model_gui.cpp
M gui/us_model_gui.h
M gui/us_model_loader.cpp
M gui/us_model_loader.h
M gui/us_plot.cpp
M gui/us_plot.h
M gui/us_plot3d.cpp
M gui/us_properties.cpp
M gui/us_report_gui.cpp
M gui/us_report_gui.h
M gui/us_rotor_gui.h
M gui/us_select_edits.h
M gui/us_select_item.cpp
M gui/us_select_item.h
M gui/us_select_runs.h
M gui/us_select_triples.h
M gui/us_solution_gui.cpp
M gui/us_solution_gui.h
M gui/us_spectrodata.cpp
M gui/us_spectrodata.h
M makeall.sh
A pkg/macos/README.md
A pkg/macos/component.plist
A pkg/macos/distribution.xml.in
A pkg/macos/launcher/UltraScan3.app/Contents/Info.plist
A pkg/macos/launcher/UltraScan3.app/Contents/MacOS/UltraScan3
A pkg/macos/postinstall
A pkg/macos/preinstall
A pkg/macos/resources/Welcome.txt.in
A pkg/macos/resources/background.png
A pkg/macos/ultrascan_sysctl.plist
A pkg/macos/uninstall.sh
M programs/CMakeLists.txt
M programs/us/CMakeLists.txt
M programs/us/revision.sh
M programs/us/us.cpp
M programs/us/us.pro
R programs/us/us_de_DE.ts
M programs/us_2dsa/us_2dsa.cpp
M programs/us_2dsa/us_2dsa.h
M programs/us_2dsa/us_adv_analysis_2d.h
M programs/us_2dsa/us_analysis_control_2d.h
M programs/us_2dsa/us_plot_control_2d.h
M programs/us_2dsa/us_show_norm.cpp
M programs/us_abde/us_norm_profile.cpp
M programs/us_analysis_profile/us_analysis_profile.cpp
M programs/us_analysis_profile/us_analysis_profile.h
M programs/us_analysis_profile/us_anapro_utils.cpp
M programs/us_astfem_sim/us_astfem_sim.cpp
M programs/us_astfem_sim/us_clipdata.h
M programs/us_autoflow_analysis/us_autoflow_analysis.cpp
M programs/us_com_project/us_com_project_gui.cpp
M programs/us_com_project/us_com_project_gui.h
M programs/us_config/us_admin.cpp
M programs/us_config/us_advanced.cpp
M programs/us_config/us_color.cpp
M programs/us_config/us_config.pro
M programs/us_config/us_database.cpp
M programs/us_config/us_font.cpp
M programs/us_config/us_newxpnhost_db.cpp
M programs/us_config/us_xpnhost.cpp
M programs/us_config/us_xpnhost_db.cpp
M programs/us_dcdt/us_dcdt.cpp
M programs/us_dcdt/us_dcdt.h
M programs/us_ddist_combine/us_ddist_combine.cpp
M programs/us_ddist_combine/us_ddist_combine.h
M programs/us_density_match/us_density_match.cpp
M programs/us_density_match/us_model_params.h
M programs/us_density_match/us_remove_models.h
M programs/us_edit/us_edit.cpp
M programs/us_edit/us_edit.h
M programs/us_edit/us_edit_scan.h
M programs/us_edit/us_exclude_profile.h
M programs/us_edit/us_select_lambdas.h
M programs/us_esigner_gmp/us_esigner_gmp.h
M programs/us_experiment/us_exp_utils.cpp
M programs/us_experiment/us_experiment_gui_optima.cpp
M programs/us_experiment/us_experiment_gui_optima.h
M programs/us_experiment/us_proto_ranges.cpp
M programs/us_fematch/us_adv_dmgamc.h
M programs/us_fematch/us_advanced_fem.h
M programs/us_fematch/us_fematch.h
M programs/us_fematch/us_plot_control_fem.h
M programs/us_fit_meniscus/CMakeLists.txt
M programs/us_fit_meniscus/us_fit_meniscus.cpp
M programs/us_fit_meniscus/us_fit_meniscus.h
M programs/us_ga_init/us_ga_init.cpp
M programs/us_ga_init/us_ga_init.h
M programs/us_ga_init/us_solutedata.cpp
M programs/us_globalequil/us_eqfit_control.h
M programs/us_globalequil/us_eqmodel_control.h
M programs/us_globalequil/us_model_adpars.h
M programs/us_globalequil/us_model_select.h
M programs/us_helpdaemon/us_helpdaemon.cpp
M programs/us_integral/us_delete_models.h
M programs/us_integral/us_integral.cpp
M programs/us_integral/us_integral.h
M programs/us_legacy_converter/us_legacy_converter.cpp
M programs/us_legacy_converter/us_legacy_converter.h
M programs/us_modelmetrics/us_modelmetrics.cpp
M programs/us_mpi_analysis/2dsa_worker.cpp
M programs/us_mpi_analysis/CMakeLists.txt
M programs/us_mpi_analysis/dmga_master.cpp
M programs/us_mpi_analysis/ga_worker.cpp
M programs/us_mpi_analysis/pcsa_worker.cpp
M programs/us_mpi_analysis/revision.sh
M programs/us_mpi_analysis/us_mpi_analysis.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.h
M programs/us_mwl_species_sim/us_mwl_species_sim.cpp
M programs/us_mwl_species_sim/us_mwl_species_sim.h
M programs/us_mwl_spectra/us_mwl_spectra.h
M programs/us_mwl_spectra/us_mwls_pltctl.h
M programs/us_mwlr_viewer/us_mwl_pltctrl.h
M programs/us_mwlr_viewer/us_mwlr_viewer.h
M programs/us_pcsa/us_adv_analysis_pc.h
M programs/us_pcsa/us_analysis_control_pc.cpp
M programs/us_pcsa/us_analysis_control_pc.h
M programs/us_pcsa/us_mlplot.h
M programs/us_pcsa/us_mrecs_loader.h
M programs/us_pcsa/us_pcsa.cpp
M programs/us_pcsa/us_pcsa.h
M programs/us_pcsa/us_plot_control_pc.h
M programs/us_pcsa/us_rpscan.h
M programs/us_protocol_dev/us_protocol_dev_gui.cpp
M programs/us_pseudo3d_combine/us_pseudo3d_combine.cpp
M programs/us_pseudo3d_combine/us_pseudo3d_combine.h
M programs/us_pseudo3d_combine/us_remove_distros.h
M programs/us_pseudo_absorbance/us_convert_scan.cpp
M programs/us_pseudo_absorbance/us_convert_scan.h
M programs/us_query_rmsd/us_query_rmsd.cpp
M programs/us_query_rmsd/us_query_rmsd.h
M programs/us_ramp/us_experiment_gui_ra.h
M programs/us_ramp/us_ramp_gui.h
M programs/us_ramp/us_select_triples_ra.h
M programs/us_reporter_gmp/us_reporter_gmp.cpp
M programs/us_reporter_gmp/us_reporter_gmp.h
M programs/us_second_moment/us_second_moment.cpp
M programs/us_second_moment/us_second_moment.h
M programs/us_spectrum/us_spectrum.cpp
M programs/us_spectrum/us_spectrum.h
M programs/us_vhw_combine/us_vhwc_pltctl.h
M programs/us_vhw_enhanced/us_vhw_enhanced.cpp
M programs/us_vhw_enhanced/us_vhw_enhanced.h
M programs/us_xpn_viewer/us_xpn_viewer_gui.cpp
R propignore
R proppng
R proptext
M qmakeall.sh
M qwtplot3d/CMakeLists.txt
M qwtplot3d/include/qwt3d_openglhelper.h
R qwtplot3d/lingua_de.ts
A scripts/bootstrap-linux.sh
A scripts/bootstrap-macos.sh
A scripts/bootstrap-windows.ps1
A scripts/bootstrap.bat
A scripts/build.bat
A scripts/build.ps1
M scripts/build.sh
M test/utils/test_us_crypto.cpp
A test/utils/test_us_help_pages.cpp
A test/utils/test_us_regex.cpp
M test/utils/test_us_time_state.cpp
A us-build
M utils/CMakeLists.txt
M utils/libus_utils.pro
M utils/us_astfem_math.cpp
M utils/us_astfem_math.h
M utils/us_astfem_rsa.cpp
M utils/us_buffer.h
M utils/us_cfa_data.cpp
M utils/us_crypto.cpp
M utils/us_crypto.h
M utils/us_csv_data.cpp
M utils/us_extern.h
M utils/us_lm.cpp
M utils/us_matrix.cpp
M utils/us_memory.cpp
M utils/us_run_protocol.cpp
M utils/us_run_protocol.h
M utils/us_solve_sim.cpp
M utils/us_time_state.cpp
M utils/us_time_state.h
M utils/us_timer.h
M utils/us_xpn_data.cpp
R vcpkg
M vcpkg.json
Log Message:
-----------
Merge branch 'main' into bump-to-v4.1.0
Commit: e7fc39e0ded8d0a6cfe774a4c39f42f3e26ec5c2
https://github.com/ehb54/ultrascan3/commit/e7fc39e0ded8d0a6cfe774a4c39f42f3e26ec5c2
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M gui/libus_gui.pro
M local.pri.template
Log Message:
-----------
Fix macx build: guard -lqwtplot3d self-link and add -lus_utils to libus_gui
local.pri.template: split -lqwtplot3d onto a guarded line so that
when qwtplot3d itself is being built it does not try to link against
its own not-yet-existing library (ld: library not found for -lqwtplot3d).
gui/libus_gui.pro: add macx LIBS += -lus_utils so that the symbols
moved into libus_gui in Nov 2025 (us_csv_loader, us_convert_gui,
us_extinction_gui, etc.) can resolve against libus_utils at link time.
Co-Authored-By: Claude Sonnet 4.6 <noreply at anthropic.com>
Commit: c81d8b70460860507d201fd8243784999eddf69b
https://github.com/ehb54/ultrascan3/commit/c81d8b70460860507d201fd8243784999eddf69b
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-16 (Tue, 16 Jun 2026)
Changed paths:
M .github/workflows/bump-version.yml
Log Message:
-----------
Merge branch 'main' into ehb54-issue-907
Commit: 36f036553bd505b52b7b696575355f3d715ab159
https://github.com/ehb54/ultrascan3/commit/36f036553bd505b52b7b696575355f3d715ab159
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M gui/libus_gui.pro
M local.pri.template
Log Message:
-----------
Merge pull request #446 from ehb54/ehb54-issue-907
Fix macx build: guard -lqwtplot3d self-link and add -lus_utils to libus_gui
Commit: c7fe1d915db484906fa21f7fdb059dd46ca14e3d
https://github.com/ehb54/ultrascan3/commit/c7fe1d915db484906fa21f7fdb059dd46ca14e3d
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
R doc/manual/source/__pycache__/auto_index.cpython-39.pyc
Log Message:
-----------
Delete doc/manual/source/__pycache__/auto_index.cpython-39.pyc
Commit: 8ed782c9a9b80ae3e81e35cfb88056da7f66986b
https://github.com/ehb54/ultrascan3/commit/8ed782c9a9b80ae3e81e35cfb88056da7f66986b
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M .gitignore
Log Message:
-----------
Add Python bytecode files to .gitignore
Commit: 02b1998e8c4e4190087e112ea223ffc452d892c1
https://github.com/ehb54/ultrascan3/commit/02b1998e8c4e4190087e112ea223ffc452d892c1
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M .gitignore
R doc/manual/source/__pycache__/auto_index.cpython-39.pyc
Log Message:
-----------
Merge pull request #447 from ehb54/ehb54-issue-908
Remove Python bytecode files and update .gitignore
Commit: 2b7ce8e951545aceafde79228ff691ba4b5b2961
https://github.com/ehb54/ultrascan3/commit/2b7ce8e951545aceafde79228ff691ba4b5b2961
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M programs/us/revision.sh
Log Message:
-----------
revision.sh: limit Δ marker to source code file changes only
Previously git diff checked all tracked files, causing the LOCAL_CHANGES
Δ symbol to appear whenever build scripts, .pri files, or other non-source
files differed from upstream — including during normal packaging builds.
Restrict the check to file types that produce compiled output:
*.h, *.cpp, *.ui (Qt Designer), *.qrc (Qt resources).
Co-Authored-By: Claude Sonnet 4.6 <noreply at anthropic.com>
Commit: a1bf5d7f2eb4649cd5167b42db38d5c6e4aa4d0d
https://github.com/ehb54/ultrascan3/commit/a1bf5d7f2eb4649cd5167b42db38d5c6e4aa4d0d
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M programs/us/revision.sh
Log Message:
-----------
revision.sh: fix pathspec scope for source-file delta check
git diff pathspecs with bare globs (*.h) only match within the current
directory, not repo-wide. Since the script cd's to programs/us/, the
check was missing changes in gui/, utils/, etc.
Fix by running git -C from the repo root so all subdirectories are covered.
Co-Authored-By: Claude Sonnet 4.6 <noreply at anthropic.com>
Commit: 325d0cbff2d496aaf6a42add91e63d096b0e9d26
https://github.com/ehb54/ultrascan3/commit/325d0cbff2d496aaf6a42add91e63d096b0e9d26
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M .gitignore
R doc/manual/source/__pycache__/auto_index.cpython-39.pyc
Log Message:
-----------
Merge branch 'main' into ehb54-issue-909
Commit: c4a785babca12aa43bf7f624928fa31cf97da1f4
https://github.com/ehb54/ultrascan3/commit/c4a785babca12aa43bf7f624928fa31cf97da1f4
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-17 (Wed, 17 Jun 2026)
Changed paths:
M programs/us/revision.sh
Log Message:
-----------
Merge pull request #448 from ehb54/ehb54-issue-909
revision.sh: limit Δ marker to source code file changes only
Commit: 45ef026ad65a694d99671bd358216a9d7f7330d3
https://github.com/ehb54/ultrascan3/commit/45ef026ad65a694d99671bd358216a9d7f7330d3
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-18 (Thu, 18 Jun 2026)
Changed paths:
A .github/gtest-us.json
M .github/workflows/bump-version.yml
M .github/workflows/doc-build.yml
A .github/workflows/sphinx-doc-build.yml
M .github/workflows/unit-tests-v2.yml
R .github/workflows/unit-tests.yml
M .gitignore
M CMakeLists.txt
M CMakePresets.json
M LICENSE.txt
R README.linguist
M README.manual
M admin/cmake/GenerateVersion.cmake
A admin/cmake/README.md
A admin/cmake/packaging/README.md
A admin/cmake/packaging/linux/LinuxDeploy.cmake
A admin/cmake/packaging/linux/LinuxHpcDeploy.cmake
A admin/cmake/packaging/linux/LinuxHpcPkg.cmake
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A admin/cmake/packaging/macos/MacOsDeployQtAssistant.cmake
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A buildsys/vcpkg/overlay-ports/mpg123/fix-arm64-no-fpu-neon64.patch
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A doc/manual/source/us_modelmetrics.rst
A doc/manual/source/us_project.rst
A doc/manual/source/us_spectrum.rst
A doc/manual/source/vhw_combine.rst
A doc/manual/source/vhw_distrib_plot.rst
A doc/manual/source/vhw_enhanced.rst
A doc/manual/source/xpn_viewer.rst
R doc/manual/template.img.body
R doc/manual/tidy.conf
R doc/manual/time_derivative.body
R doc/manual/ultrascan3.txt
R doc/manual/us_buffer.body
R doc/manual/us_edit.body
R doc/manual/us_edit_mwl.body
R doc/manual/us_equiltime.body
R doc/manual/us_fds_filemanager.body
R doc/manual/us_investigator.body
R doc/manual/us_modelmetrics.body
R doc/manual/us_project.body
R doc/manual/us_solution.body
R doc/manual/uscol.body
R doc/manual/uscolor2.body
R doc/manual/usfont.body
R doc/manual/usfont2.body
R doc/manual/vhw_combine.body
R doc/manual/vhw_distrib_plot.body
R doc/manual/vhw_enhanced.body
R doc/manual/wrapped-images.lst
M etc/etc_belongs_list.txt
R etc/us3-GMP-icon-128x128.ico
M etc/us3-GMP-icon-128x128.png
R etc/us3-GMP-icon-128x128.xpm
R etc/us3-GMP-icon-32x32.ico
R etc/us3-GMP-icon-32x32.png
R etc/us3-GMP-icon-32x32.xpm
R etc/us3-GMP-icon-48x48.ico
R etc/us3-GMP-icon-48x48.png
R etc/us3-GMP-icon-48x48.xpm
M gui/CMakeLists.txt
M gui/libus_gui.pro
M gui/us_abstractrotor_gui.h
M gui/us_analyte_gui.cpp
M gui/us_analyte_gui.h
M gui/us_buffer_gui.cpp
M gui/us_buffer_gui.h
M gui/us_convert_gui.cpp
M gui/us_convert_gui.h
M gui/us_data_loader.h
M gui/us_experiment_gui.h
M gui/us_extinction_gui.cpp
M gui/us_extinction_gui.h
M gui/us_get_run.h
M gui/us_help.cpp
M gui/us_load_auc.h
M gui/us_model_gui.cpp
M gui/us_model_gui.h
M gui/us_model_loader.h
M gui/us_plot.cpp
M gui/us_plot.h
M gui/us_plot3d.cpp
M gui/us_properties.cpp
M gui/us_rotor_gui.h
M gui/us_select_edits.h
M gui/us_select_item.cpp
M gui/us_select_item.h
M gui/us_select_runs.h
M gui/us_select_triples.h
M gui/us_solution_gui.cpp
M gui/us_solution_gui.h
M gui/us_spectrodata.cpp
M gui/us_spectrodata.h
M local.pri.template
M makeall.sh
A pkg/macos/README.md
A pkg/macos/component.plist
A pkg/macos/distribution.xml.in
A pkg/macos/launcher/UltraScan3.app/Contents/Info.plist
A pkg/macos/launcher/UltraScan3.app/Contents/MacOS/UltraScan3
A pkg/macos/postinstall
A pkg/macos/preinstall
A pkg/macos/resources/Welcome.txt.in
A pkg/macos/resources/background.png
A pkg/macos/ultrascan_sysctl.plist
A pkg/macos/uninstall.sh
M programs/CMakeLists.txt
M programs/us/CMakeLists.txt
M programs/us/revision.sh
M programs/us/us.cpp
M programs/us/us.pro
R programs/us/us_de_DE.ts
M programs/us_2dsa/us_2dsa.h
M programs/us_2dsa/us_adv_analysis_2d.h
M programs/us_2dsa/us_analysis_control_2d.h
M programs/us_2dsa/us_plot_control_2d.h
M programs/us_2dsa/us_show_norm.cpp
M programs/us_abde/us_norm_profile.cpp
M programs/us_analysis_profile/us_analysis_profile.cpp
M programs/us_analysis_profile/us_analysis_profile.h
M programs/us_analysis_profile/us_anapro_utils.cpp
M programs/us_astfem_sim/us_astfem_sim.cpp
M programs/us_astfem_sim/us_clipdata.h
M programs/us_com_project/us_com_project_gui.cpp
M programs/us_com_project/us_com_project_gui.h
M programs/us_config/us_admin.cpp
M programs/us_config/us_advanced.cpp
M programs/us_config/us_color.cpp
M programs/us_config/us_config.pro
M programs/us_config/us_database.cpp
M programs/us_config/us_font.cpp
M programs/us_config/us_newxpnhost_db.cpp
M programs/us_config/us_xpnhost.cpp
M programs/us_config/us_xpnhost_db.cpp
M programs/us_ddist_combine/us_ddist_combine.cpp
M programs/us_ddist_combine/us_ddist_combine.h
M programs/us_density_match/us_density_match.cpp
M programs/us_density_match/us_model_params.h
M programs/us_density_match/us_remove_models.h
M programs/us_edit/us_edit.cpp
M programs/us_edit/us_edit.h
M programs/us_edit/us_edit_scan.h
M programs/us_edit/us_exclude_profile.h
M programs/us_edit/us_select_lambdas.h
M programs/us_esigner_gmp/us_esigner_gmp.h
M programs/us_experiment/us_exp_utils.cpp
M programs/us_experiment/us_experiment_gui_optima.cpp
M programs/us_experiment/us_experiment_gui_optima.h
M programs/us_experiment/us_proto_ranges.cpp
M programs/us_fematch/us_adv_dmgamc.h
M programs/us_fematch/us_advanced_fem.h
M programs/us_fematch/us_fematch.h
M programs/us_fematch/us_plot_control_fem.h
M programs/us_ga_init/us_ga_init.cpp
M programs/us_ga_init/us_ga_init.h
M programs/us_ga_init/us_solutedata.cpp
M programs/us_globalequil/us_eqfit_control.h
M programs/us_globalequil/us_eqmodel_control.h
M programs/us_globalequil/us_model_adpars.h
M programs/us_globalequil/us_model_select.h
M programs/us_helpdaemon/us_helpdaemon.cpp
M programs/us_integral/us_delete_models.h
M programs/us_integral/us_integral.cpp
M programs/us_integral/us_integral.h
M programs/us_legacy_converter/us_legacy_converter.cpp
M programs/us_legacy_converter/us_legacy_converter.h
M programs/us_modelmetrics/us_modelmetrics.cpp
M programs/us_mpi_analysis/2dsa_worker.cpp
M programs/us_mpi_analysis/CMakeLists.txt
M programs/us_mpi_analysis/dmga_master.cpp
M programs/us_mpi_analysis/ga_worker.cpp
M programs/us_mpi_analysis/pcsa_worker.cpp
M programs/us_mpi_analysis/revision.sh
M programs/us_mpi_analysis/us_mpi_analysis.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.h
M programs/us_mwl_species_sim/us_mwl_species_sim.cpp
M programs/us_mwl_species_sim/us_mwl_species_sim.h
M programs/us_mwl_spectra/us_mwl_spectra.h
M programs/us_mwl_spectra/us_mwls_pltctl.h
M programs/us_mwlr_viewer/us_mwl_pltctrl.h
M programs/us_mwlr_viewer/us_mwlr_viewer.h
M programs/us_pcsa/us_adv_analysis_pc.h
M programs/us_pcsa/us_analysis_control_pc.cpp
M programs/us_pcsa/us_analysis_control_pc.h
M programs/us_pcsa/us_mlplot.h
M programs/us_pcsa/us_mrecs_loader.h
M programs/us_pcsa/us_pcsa.h
M programs/us_pcsa/us_plot_control_pc.h
M programs/us_pcsa/us_rpscan.h
M programs/us_protocol_dev/us_protocol_dev_gui.cpp
M programs/us_pseudo3d_combine/us_pseudo3d_combine.cpp
M programs/us_pseudo3d_combine/us_pseudo3d_combine.h
M programs/us_pseudo3d_combine/us_remove_distros.h
M programs/us_pseudo_absorbance/us_convert_scan.cpp
M programs/us_pseudo_absorbance/us_convert_scan.h
M programs/us_query_rmsd/us_query_rmsd.cpp
M programs/us_query_rmsd/us_query_rmsd.h
M programs/us_ramp/us_experiment_gui_ra.h
M programs/us_ramp/us_ramp_gui.h
M programs/us_ramp/us_select_triples_ra.h
M programs/us_reporter_gmp/us_reporter_gmp.cpp
M programs/us_reporter_gmp/us_reporter_gmp.h
M programs/us_spectrum/us_spectrum.cpp
M programs/us_spectrum/us_spectrum.h
M programs/us_vhw_combine/us_vhwc_pltctl.h
M programs/us_xpn_viewer/us_xpn_viewer_gui.cpp
R propignore
R proppng
R proptext
M qmakeall.sh
M qwtplot3d/CMakeLists.txt
R qwtplot3d/lingua_de.ts
A scripts/bootstrap-linux.sh
A scripts/bootstrap-macos.sh
A scripts/bootstrap-windows.ps1
A scripts/bootstrap.bat
M scripts/build.bat
M scripts/build.ps1
M scripts/build.sh
M test/utils/test_us_crypto.cpp
A test/utils/test_us_help_pages.cpp
M test/utils/test_us_regex.cpp
M test/utils/test_us_time_state.cpp
A us-build
M utils/CMakeLists.txt
M utils/libus_utils.pro
M utils/us_astfem_math.cpp
M utils/us_astfem_math.h
M utils/us_astfem_rsa.cpp
M utils/us_buffer.h
M utils/us_cfa_data.cpp
M utils/us_crypto.cpp
M utils/us_crypto.h
M utils/us_extern.h
M utils/us_lm.cpp
M utils/us_matrix.cpp
M utils/us_memory.cpp
M utils/us_run_protocol.cpp
M utils/us_run_protocol.h
M utils/us_solve_sim.cpp
M utils/us_time_state.cpp
M utils/us_time_state.h
M utils/us_timer.h
M utils/us_xpn_data.cpp
M vcpkg.json
Log Message:
-----------
Merge branch 'main' into ehb54-issue-766
Commit: 3ba8a99c404673869fe12bb20bdfd05fc1cbb9e9
https://github.com/ehb54/ultrascan3/commit/3ba8a99c404673869fe12bb20bdfd05fc1cbb9e9
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-18 (Thu, 18 Jun 2026)
Changed paths:
M gui/libus_gui.pro
Log Message:
-----------
remove redundant macx{} block in libus_gui.pro
The single-line macx: LIBS already covers this; the block added in
the prior commit was duplicate.
Co-Authored-By: Claude Sonnet 4.6 <noreply at anthropic.com>
Commit: 5b846ae2ba06a1fe8922ca5463989738b9ac9388
https://github.com/ehb54/ultrascan3/commit/5b846ae2ba06a1fe8922ca5463989738b9ac9388
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-18 (Thu, 18 Jun 2026)
Changed paths:
M gui/libus_gui.pro
Log Message:
-----------
Merge pull request #375 from ehb54/ehb54-issue-766
fix win32 gui link: add version suffix to -lqwtplot3d
Commit: e42355993bdf8df5f59068aae970ffe9d7447c95
https://github.com/ehb54/ultrascan3/commit/e42355993bdf8df5f59068aae970ffe9d7447c95
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M .gitignore
R doc/manual/source/__pycache__/auto_index.cpython-39.pyc
M gui/libus_gui.pro
M local.pri.template
M programs/us/revision.sh
Log Message:
-----------
Merge branch 'main' into bump-to-v4.1.0
Commit: 4102be089f9a53763e66d2b41a5d7ff0a81baee9
https://github.com/ehb54/ultrascan3/commit/4102be089f9a53763e66d2b41a5d7ff0a81baee9
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M admin/release/linux.pl
Log Message:
-----------
Fix linux.pl package name generation for new version/revision header format
us_revision.h no longer has a single REVISION field; it now has separate
BUILDNUM/GIT_REVISION/REVISION_DATE/LOCAL_CHANGES fields. The old
"grep REVISION" matched both GIT_REVISION and REVISION_DATE, producing a
multi-line value that broke the generated package directory name and the
shell commands built from it (used by both the redhat and ubuntu release
Dockerfiles). Build the package name from US_Version (utils/us_defines.h)
and BUILDNUM instead.
Fixes ehb54/ultrascan-tickets#910
Commit: 22905927a67f8bb8637ed325009771296c5b9052
https://github.com/ehb54/ultrascan3/commit/22905927a67f8bb8637ed325009771296c5b9052
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M admin/release/linux.pl
Log Message:
-----------
Merge pull request #451 from ehb54/ehb54-issue-910
Fix linux.pl package name generation for new version/revision header format
Commit: 3c4a6a12de6f56ab3ccb0e05512fe01538445686
https://github.com/ehb54/ultrascan3/commit/3c4a6a12de6f56ab3ccb0e05512fe01538445686
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M .github/workflows/codeql-analysis.yml
Log Message:
-----------
Fix CodeQL build-target detection: == is not valid in POSIX sh [ ]
The "Calculate Build Targets" step runs under sh (dash), where [ ] only
supports = not ==. Every [ "$X" == "true" ] test errored as "unexpected
operator" and was treated as false, so the full-rebuild branch never ran
even on a push to main with FORCE_ALL=true. This meant CodeQL's analysis
database only ever contained whichever programs happened to be touched
by a given push's diff, causing already-open alerts in untouched files
(e.g. us_spectrum.cpp) to flap between Fixed/Reappeared across unrelated
PRs without the underlying code ever changing.
Fixes ehb54/ultrascan-tickets#911
Commit: 2bb70f296f3ecc8f762152da20c145583f3d4fc1
https://github.com/ehb54/ultrascan3/commit/2bb70f296f3ecc8f762152da20c145583f3d4fc1
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M programs/us_globalequil/us_eqmath.cpp
M programs/us_globalequil/us_fit_worker.cpp
M programs/us_mwl_species_fit/us_mwl_sf_plot3d.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.cpp
M programs/us_pcsa/us_pcsa_process.cpp
M programs/us_spectrum/us_spectrum.cpp
Log Message:
-----------
Fix remaining CodeQL security alerts: int-multiplication overflow + format arg
Same pattern as PR #435: cast one multiplication operand to qsizetype
before sizing a QVector, so the multiply itself doesn't happen in (32-bit)
int before widening. Also fixes a %d/qsizetype format-specifier mismatch
in us_pcsa_process.cpp.
Fixes ehb54/ultrascan-tickets#912
Commit: 8ebc45097882afa73f22a184410e310658fca0de
https://github.com/ehb54/ultrascan3/commit/8ebc45097882afa73f22a184410e310658fca0de
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M admin/release/linux.pl
Log Message:
-----------
Merge branch 'main' into bump-to-v4.1.0
Commit: 733d3f549696b0efe49cd26d0840bdf6ab37d5e7
https://github.com/ehb54/ultrascan3/commit/733d3f549696b0efe49cd26d0840bdf6ab37d5e7
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
A VERSION
M utils/us_defines.h
Log Message:
-----------
Merge pull request #445 from ehb54/bump-to-v4.1.0
Bump to v4.1.0
Commit: 951770eef3cf63893454a5402ccb79e4a64062db
https://github.com/ehb54/ultrascan3/commit/951770eef3cf63893454a5402ccb79e4a64062db
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
A VERSION
M utils/us_defines.h
Log Message:
-----------
Merge branch 'main' into ehb54-issue-911
Commit: d981490e29291aa7d6124604cc0ea33dcc753df3
https://github.com/ehb54/ultrascan3/commit/d981490e29291aa7d6124604cc0ea33dcc753df3
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M .github/workflows/codeql-analysis.yml
Log Message:
-----------
Merge pull request #452 from ehb54/ehb54-issue-911
Fix CodeQL build-target detection (sh != bash, == in [ ])
Commit: cb2753416846b0e812f495ef4a5f2161dd35280c
https://github.com/ehb54/ultrascan3/commit/cb2753416846b0e812f495ef4a5f2161dd35280c
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M .github/workflows/codeql-analysis.yml
A VERSION
M utils/us_defines.h
Log Message:
-----------
Merge branch 'main' into ehb54-issue-912
Commit: e3b3099b8aaebbe3c4fc5ddb2e7acb7186893133
https://github.com/ehb54/ultrascan3/commit/e3b3099b8aaebbe3c4fc5ddb2e7acb7186893133
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-19 (Fri, 19 Jun 2026)
Changed paths:
M programs/us_globalequil/us_eqmath.cpp
M programs/us_globalequil/us_fit_worker.cpp
M programs/us_mwl_species_fit/us_mwl_sf_plot3d.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.cpp
M programs/us_pcsa/us_pcsa_process.cpp
M programs/us_spectrum/us_spectrum.cpp
Log Message:
-----------
Merge pull request #453 from ehb54/ehb54-issue-912
Fix remaining CodeQL security alerts (multiplication overflow + format arg)
Commit: d689ce8f674d78d26e7bff34f3928a4950f933af
https://github.com/ehb54/ultrascan3/commit/d689ce8f674d78d26e7bff34f3928a4950f933af
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-22 (Mon, 22 Jun 2026)
Changed paths:
M makeall.sh
Log Message:
-----------
Robustly detect sphinx-build/python3 for DOMAN doc build on RHEL8
RHEL8 variants ship a too-old default python3 (3.6) plus optional
python3.11/python3.12 packages with no sphinx-build shim on PATH,
so the existing "which sphinx-build" check frequently misses a
working installation. Search candidate interpreters newest-first,
self-install Sphinx via ensurepip/pip if needed, and shim a scoped
python3 symlink on PATH only for the doc make step when the chosen
interpreter isn't named python3.
Fixes ultrascan-tickets#925
Commit: f41aa3fd5b8d0ec601363a640f3b964ba85b1e51
https://github.com/ehb54/ultrascan3/commit/f41aa3fd5b8d0ec601363a640f3b964ba85b1e51
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-22 (Mon, 22 Jun 2026)
Changed paths:
M makeall.sh
Log Message:
-----------
Reject Python interpreters too old for conf.py in DOMAN detection
doc/manual/source/conf.py uses Python >=3.9 syntax (PEP 585 builtin
generics, e.g. "list[str]"). The find_doc_python() search only checked
"import sphinx" succeeding, so a too-old default python3 (e.g. RHEL's
3.6) with a stale manually pip-installed Sphinx from before this
script existed got picked over a usable python3.11/python3.12 on the
same host, and the build then crashed in conf.py with "TypeError:
'type' object is not subscriptable". Add an explicit version check
that rejects any candidate interpreter below 3.9 before checking for
or installing Sphinx.
ehb54/ultrascan-tickets#925
Commit: 18e656c09220a8883e1755f461737db76d91c710
https://github.com/ehb54/ultrascan3/commit/18e656c09220a8883e1755f461737db76d91c710
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-22 (Mon, 22 Jun 2026)
Changed paths:
M makeall.sh
Log Message:
-----------
Drop --upgrade from ensurepip call in DOMAN detection
"ensurepip --upgrade" bootstraps pip from the bundled wheel and then
has pip upgrade itself from PyPI, which fails outright on
network-restricted hosts. Plain "ensurepip" only installs the bundled
wheel (fully offline) and is all that's needed to get a working pip
module before installing doc/manual/source/requirements.txt.
ehb54/ultrascan-tickets#925
Commit: 25987d47541a67eb9c6168d741326e47ede154b9
https://github.com/ehb54/ultrascan3/commit/25987d47541a67eb9c6168d741326e47ede154b9
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-22 (Mon, 22 Jun 2026)
Changed paths:
M makeall.sh
Log Message:
-----------
Fix DOMAN fast path to check python3, not sphinx-build
doc/manual/Makefile invokes the interpreter as plain "python3"
(SPHINXBUILD ?= python3 -m sphinx), not "sphinx-build". The previous
fast path checked "sphinx-build --version" and returned immediately on
success, but an unrelated sphinx-build entry-point script tied to some
other (possibly too-old) interpreter can be on PATH and "work" -- since
--version never touches conf.py -- while "python3 -m sphinx" still
fails. This bypassed the version-gated python3.X search entirely and
explains why the previous DOMAN fixes had no effect on a host with a
stale sphinx-build shim left over from a manual "pip install --user"
under python3.6. Check bare python3 directly instead.
ehb54/ultrascan-tickets#925
Commit: c71f3b106e12d2e2c40ee77a9695bee1793ff680
https://github.com/ehb54/ultrascan3/commit/c71f3b106e12d2e2c40ee77a9695bee1793ff680
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-23 (Tue, 23 Jun 2026)
Changed paths:
M makeall.sh
Log Message:
-----------
Merge pull request #457 from ehb54/ehb54-issue-925
makeall.sh: robust sphinx/python3 detection for DOMAN on RHEL8 variants
Commit: 6d06a0c1b49dfa1141dc8625e75bc03918635a40
https://github.com/ehb54/ultrascan3/commit/6d06a0c1b49dfa1141dc8625e75bc03918635a40
Author: ehb54 <brookes at uthscsa.edu>
Date: 2026-06-23 (Tue, 23 Jun 2026)
Changed paths:
M admin/release/linux.pl
Log Message:
-----------
Include LICENSE.txt in Linux release packages
The Linux tar.xz packaging script never copied LICENSE.txt into the
package, unlike the Windows packaging script which does. Add the same
copy step so Linux packages ship a license file too.
Fixes ehb54/ultrascan-tickets#868
Commit: c67d82488c7f281c78458954341098446e6baea0
https://github.com/ehb54/ultrascan3/commit/c67d82488c7f281c78458954341098446e6baea0
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-23 (Tue, 23 Jun 2026)
Changed paths:
M admin/release/linux.pl
Log Message:
-----------
Merge pull request #458 from ehb54/ehb54-issue-868
Include LICENSE.txt in Linux release packages
Commit: e47a1e408f3d0ac6a7db58fdf0cab65ab3b30a6f
https://github.com/ehb54/ultrascan3/commit/e47a1e408f3d0ac6a7db58fdf0cab65ab3b30a6f
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-24 (Wed, 24 Jun 2026)
Changed paths:
M programs/us_experiment/us_exp_utils.cpp
Log Message:
-----------
GMP-dataDisk: 1. EXP: 5. Solutions -- exclude (unspecified) item in all solution cahnnels for uploaded form disk data...
Commit: 8a9c0cc6be7aaf9304035a342cbaeaba80e24135
https://github.com/ehb54/ultrascan3/commit/8a9c0cc6be7aaf9304035a342cbaeaba80e24135
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-24 (Wed, 24 Jun 2026)
Changed paths:
M programs/us_experiment/us_exp_utils.cpp
Log Message:
-----------
Merge pull request #459 from ehb54/alexey-dev-issue929
GMP-dataDisk: 1. EXP: 5. Solutions -- exclude (unspecified) item in all solution cahnnels for uploaded form disk data...
Commit: ed7f5a0cdf313c3337076a886caebe0f469d88a7
https://github.com/ehb54/ultrascan3/commit/ed7f5a0cdf313c3337076a886caebe0f469d88a7
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_manage_data/us_manage_data.cpp
Log Message:
-----------
Database: Manage Data: if there is no DB conenction, inform the user and close the program instead of proceeding and crashing...
Commit: 888dfa5cada04313f4e905ecab395a6080a7ad24
https://github.com/ehb54/ultrascan3/commit/888dfa5cada04313f4e905ecab395a6080a7ad24
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_manage_data/us_manage_data.cpp
Log Message:
-----------
[edited mesage]Database: Manage Data: if there is no DB conenction, inform the user and close the program instead of proceeding and crashing...
Commit: edda3c63be4e85f9fde90d971bf72dd1e184c1aa
https://github.com/ehb54/ultrascan3/commit/edda3c63be4e85f9fde90d971bf72dd1e184c1aa
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_manage_data/us_manage_data.cpp
Log Message:
-----------
Merge pull request #460 from ehb54/alexey-dev-issue928
Database: Manage Data: if there is no DB conenction, inform the user and close the program instead of proceeding and crashing...
Commit: b9470a9bb9ca3b1859b7f798fa5f5e76a33a99ab
https://github.com/ehb54/ultrascan3/commit/b9470a9bb9ca3b1859b7f798fa5f5e76a33a99ab
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_config/us_database.cpp
Log Message:
-----------
Preferences: Database -> Change: enable Save Entry button for any existing or new entry only after Test Connetction is successful...
Commit: f0244186bf701788c6e7bc3915a4cca84aabe865
https://github.com/ehb54/ultrascan3/commit/f0244186bf701788c6e7bc3915a4cca84aabe865
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_manage_data/us_manage_data.cpp
Log Message:
-----------
Merge branch 'main' into alexey-dev-issue932
Commit: 16b34f7a8252e4af4fbca5ebbd01f38bbb376beb
https://github.com/ehb54/ultrascan3/commit/16b34f7a8252e4af4fbca5ebbd01f38bbb376beb
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_config/us_database.cpp
Log Message:
-----------
[add connection check when attemting to Save]Preferences: Database -> Change: enable Save Entry button for any existing or new entry only after Test Connetction is successful...
Commit: 9c0f94c5d0a9f09a78152c7c5862b7f2e9a8bf6b
https://github.com/ehb54/ultrascan3/commit/9c0f94c5d0a9f09a78152c7c5862b7f2e9a8bf6b
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_manage_data/us_manage_data.cpp
Log Message:
-----------
Merge branch 'alexey-dev-issue932' of github.com:ehb54/ultrascan3 into alexey-dev-issue932
Commit: fb0e0bd78e483abe98e103bc0093440b38c5c669
https://github.com/ehb54/ultrascan3/commit/fb0e0bd78e483abe98e103bc0093440b38c5c669
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_config/us_database.cpp
Log Message:
-----------
[[1]add connection check when attemting to Save]Preferences: Database -> Change: enable Save Entry button for any existing or new entry only after Test Connetction is successful...
Commit: 5732996f335aec054f71c4e536a044841eb385b5
https://github.com/ehb54/ultrascan3/commit/5732996f335aec054f71c4e536a044841eb385b5
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-25 (Thu, 25 Jun 2026)
Changed paths:
M programs/us_config/us_database.cpp
Log Message:
-----------
Merge pull request #461 from ehb54/alexey-dev-issue932
Preferences: Database -> Change: enable Save Entry button for any existing or new entries only after Test Connection is successful.
Commit: 0d4d8870eb492684324b6bc7a5a39ca6b12c1c63
https://github.com/ehb54/ultrascan3/commit/0d4d8870eb492684324b6bc7a5a39ca6b12c1c63
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-26 (Fri, 26 Jun 2026)
Changed paths:
M programs/us/us.cpp
Log Message:
-----------
US: hide "GMP" menu item for MacOS only...
Commit: 1dd7a098a12171044289211cd22079f8b12f527d
https://github.com/ehb54/ultrascan3/commit/1dd7a098a12171044289211cd22079f8b12f527d
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-26 (Fri, 26 Jun 2026)
Changed paths:
M programs/us/us.cpp
Log Message:
-----------
US: hide "Utilitoes->Data Acqusition" menu item for MacOS only...
Commit: 37dfa3e81496bc5667af8082527f5ea1065c8133
https://github.com/ehb54/ultrascan3/commit/37dfa3e81496bc5667af8082527f5ea1065c8133
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-26 (Fri, 26 Jun 2026)
Changed paths:
M programs/us/us.cpp
Log Message:
-----------
Merge pull request #462 from ehb54/alexey-dev-issue935
US: hide "GMP" menu item for MacOS only...
Commit: 7eb866b9fcef86510463852edf2b6db9c2010dce
https://github.com/ehb54/ultrascan3/commit/7eb866b9fcef86510463852edf2b6db9c2010dce
Author: aaron-auc <aaron at aucsolutions.com>
Date: 2026-06-27 (Sat, 27 Jun 2026)
Changed paths:
M doc/manual/source/conf.py
Log Message:
-----------
fix: restrict Sphinx dirty-check to source files to match revision.sh
The conf.py generate_version_metadata() was running git diff against all
tracked files with no path filter. On a macOS release build, a non-source
file (doc, script, etc.) was modified, causing conf.py to mark the build
dirty and embed Δ in the Qt Help namespace/version string — even though
revision.sh (splash screen) correctly showed no dirty flag because it
already restricts to *.h *.cpp *.ui *.qrc.
Fix: add the same -- *.h *.cpp *.ui *.qrc pathspec filter to both git diff
calls in conf.py so the dirty indicator is consistent with revision.sh.
Closes #936
Co-Authored-By: Claude Sonnet 4.6 <noreply at anthropic.com>
Commit: 52636d73ba151811a714c312eaae23119fbc3e22
https://github.com/ehb54/ultrascan3/commit/52636d73ba151811a714c312eaae23119fbc3e22
Author: emre brookes <ehb54 at users.noreply.github.com>
Date: 2026-06-29 (Mon, 29 Jun 2026)
Changed paths:
M doc/manual/source/conf.py
Log Message:
-----------
Merge pull request #464 from ehb54/issue-936
fix: restrict Sphinx dirty-check to source files (issue #936)
Commit: bf49bd46aead939f3337d7940a2f9c16bf6ee054
https://github.com/ehb54/ultrascan3/commit/bf49bd46aead939f3337d7940a2f9c16bf6ee054
Author: alexsav815 <alexsav.science at gmail.com>
Date: 2026-06-29 (Mon, 29 Jun 2026)
Changed paths:
M .github/workflows/bump-version.yml
M .github/workflows/codeql-analysis.yml
M .gitignore
A VERSION
M admin/release/linux.pl
R doc/manual/source/__pycache__/auto_index.cpython-39.pyc
M doc/manual/source/conf.py
M gui/libus_gui.pro
M local.pri.template
M makeall.sh
M programs/us/revision.sh
M programs/us/us.cpp
M programs/us_config/us_database.cpp
M programs/us_experiment/us_exp_utils.cpp
M programs/us_globalequil/us_eqmath.cpp
M programs/us_globalequil/us_fit_worker.cpp
M programs/us_manage_data/us_manage_data.cpp
M programs/us_mwl_species_fit/us_mwl_sf_plot3d.cpp
M programs/us_mwl_species_fit/us_mwl_species_fit.cpp
M programs/us_pcsa/us_pcsa_process.cpp
M programs/us_protocol_dev/us_protocol_dev_gui.cpp
M programs/us_spectrum/us_spectrum.cpp
M utils/us_defines.h
Log Message:
-----------
Merge branch 'main' into alexey-dev-issue892
Compare: https://github.com/ehb54/ultrascan3/compare/0d175fa9f937...bf49bd46aead
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