[Debian-pan-maintainers] Status report: X-ray scientific packaging from SOLEIL

Sat Nov 20 12:28:57 GMT 2021

Hi all, 

Just a status report on packages that have been pushed by SOLEIL reduction and analysis team into the Debian packaging pipe-line, as stated in <https://salsa.debian.org/pan-team/soleil-packaging-overview>. We have sub-contracted the Freexian <https://www.freexian.com/> and Gnurandal <https://gnurandal.com/pages/home/> compagnies for this purpose, since Sept 2020. 

Already in stable /Bullseye (already available in official repo, deb packages are available): 

    1. 2020-10-31 ARPYS [ https://tracker.debian.org/pkg/arpys | https://tracker.debian.org/pkg/arpys ] in Bullseye: X-ray ARPES data reduction and analysis. 
    2. 2020-10-29 python-igor [ https://tracker.debian.org/pkg/python-igor | https://tracker.debian.org/pkg/python-igor ] in Bullseye: read Igor workspaces from Python. This is needed by ARPYS and other ARPES libraries. 
    3. 2020-10-22 GENX [ https://tracker.debian.org/pkg/genx | https://tracker.debian.org/pkg/genx ] in Bullseye: X/neutron reflectivity data analysis. 
    4. 2020-10-22 DENSS [ https://tracker.debian.org/pkg/denss | https://tracker.debian.org/pkg/denss ] in Bullseye: SAXS solution scattering profile 
    5. 2020-10-22 HYPERSPY [ https://tracker.debian.org/pkg/denss | https://tracker.debian.org/pkg/hyperspy ] in Bullseye: interactive analysis of multidimensional datasets 
    6. 2020-09-03 python-colorcet [ https://tracker.debian.org/pkg/colorcet | https://tracker.debian.org/pkg/colorcet ] in Bullseye: set of useful perceptually uniform colormaps for plotting scientific data 
    7. 2020-07-16 python3-dials-data [ https://tracker.debian.org/pkg/dials-data | https://tracker.debian.org/pkg/dials-data ] in Bullseye: Python data files used for regression tests in DIALS, dxtbx, xia2 
    8. 2020-07-22 pyct [ https://tracker.debian.org/pkg/pyct | https://tracker.debian.org/pkg/pyct ] in Bullseye: Python packaging Common Tasks (used by other packages) 
    9. 2020-07-13 python-procrunner [ https://tracker.debian.org/pkg/python-procrunner | https://tracker.debian.org/pkg/python-procrunner ] in Bullseye: Versatile utility function to run external processes from Python (usedby dials-data, cctbx and others). 
    10. 2020-04-08 xrayutilities [ https://tracker.debian.org/pkg/xrayutilities | https://tracker.debian.org/pkg/xrayutilities ] in Bullseye: X-rays data reduction and analysis 
    11. 2020-04-08 python3-pyhst2-cuda [ https://tracker.debian.org/pkg/pyhst2 | https://tracker.debian.org/pkg/pyhst2 ] in Bullseye: Python High Speed Tomographic reconstruction 

In testing (for next Debian release Bookworm, SID, deb packages are available): 

    1. 2020-06-23 astra-toolbox [ https://tracker.debian.org/pkg/astra-toolbox, | https://tracker.debian.org/pkg/astra-toolbox, ] in SID testing: toolbox of high-performance GPU primitives for 2D and 3D tomography, python/octave. 
    2. 2021-02-04 python-pynndescent [ https://tracker.debian.org/pkg/python-pynndescent | https://tracker.debian.org/pkg/python-pynndescent ] in SID testing: nearest neighbor descent for approximate nearest neighbors, used in Orange3/Quasars 
    3. 2021-09-19 python-spectral [ https://tracker.debian.org/pkg/python-spectral, | https://tracker.debian.org/pkg/python-spectral, ] in SID testing: process hyperspectral imagery 
    4. 2021-11-08 opentsne [ https://tracker.debian.org/pkg/opentsne, | https://tracker.debian.org/pkg/opentsne, ] in SID testing: t-Distributed Stochastic Neighbor Embedding algorithm, used in Orange3/Quasars 
    5. 2021-11-09 xraylib [ https://tracker.debian.org/pkg/xraylib, | https://tracker.debian.org/pkg/xraylib, ] in SID testing: library for interactions of X-rays with matter 
    6. 2021-11-10 clpeak [ https://tracker.debian.org/pkg/clpeak, | https://tracker.debian.org/pkg/clpeak, ] in SID testing: Profile OpenCL devices to find peak capacities 

In unstable (expected to move to testing, deb packages are available) 

    1. 2021-05-20 qemu-web-desktop [ https://tracker.debian.org/pkg/qemu-web-desktop, | https://tracker.debian.org/pkg/qemu-web-desktop, ] in SID unstable: Remote desktop service with virtual machines in a browser. 
    2. 2021-11-08 nbsphinx-link [ https://tracker.debian.org/pkg/nbsphinx%2Dlink, | https://tracker.debian.org/pkg/nbsphinx%2Dlink, ] in SID unstable: sphinx extension for including notebooks outside of sphinx root, for JupyterHub 
    3. 2021-11-17 NAVarp [ https://tracker.debian.org/pkg/navarp, | https://tracker.debian.org/pkg/navarp, ] in SID unstable: Navigation tool for ARPES data 
    4. 2021-11-19 XRSTools [ https://tracker.debian.org/pkg/xrstools | https://tracker.debian.org/pkg/xrstools ] in SID unstable: x-ray Raman scattering tools (IXS/RIXS) 

Waiting for NEW -> unstable (no automatic deb generated yet, but can be generated from Salsa GIT) 

    1. 2021-09-10 epics-base [ https://ftp-master.debian.org/new/epics-base_7.0.3.1-1.html | https://ftp-master.debian.org/new/epics-base_7.0.3.1-1.html ] in NEW: EPICS channel access client library 
    2. 2021-10-12 jupyterhub [ https://ftp-master.debian.org/new/jupyterhub_1.4.1+ds2-1.html | https://ftp-master.debian.org/new/jupyterhub_1.4.1+ds2-1.html ] in NEW: Multi-user server for Jupyter notebooks, as well as node-http-proxy, node-colorspace, node-stack-trace, node-one-time, node-lynx, node-dabh-diagnostics, node-fast-safe-stringify, ... 
    3. 2021-09-26 moviepy [ https://ftp-master.debian.org/new/moviepy_1.0.3-1.html | https://ftp-master.debian.org/new/moviepy_1.0.3-1.html ] in NEW: Video editing with Python 
    4. 2021-10-01dioptas [ https://ftp-master.debian.org/new/dioptas_0.5.2-2.html | https://ftp-master.debian.org/new/dioptas_0.5.2-2.html ] in NEW: GUI for reduction and exploration of X-ray diffraction images (on top of PyFAI) 
    5. 2021-02-25 mantis-xray [ https://ftp-master.debian.org/new/mantis-xray_3.0.11-3.html | https://ftp-master.debian.org/new/mantis-xray_3.0.11-3.html ] in NEW: Multivariate ANalysis Tool for x-ray Spectromicroscopy 
    6. 2021-10-12 dmrgpp [ https://ftp-master.debian.org/new/dmrgpp_6.00-1.html | https://ftp-master.debian.org/new/dmrgpp_6.00-1.html ] in NEW: Density matrix renormalization group algorithm (for RIXS/IXS). 
    7. 2021-10-12 ifeffit [ https://ftp-master.debian.org/new/ifeffit_2:1.2.11d-11.html | https://ftp-master.debian.org/new/ifeffit_2:1.2.11d-11.html ] in NEW: Interactive XAFS analysis program (was moved out debian for py2.7. note: pgplot5 depracted, should replace by giza dep). 
    8. 2021-10-13 tomogui [ https://ftp-master.debian.org/new/tomogui_0.3.1-1.html | https://ftp-master.debian.org/new/tomogui_0.3.1-1.html ] in NEW: GUI for freeart and silx tomographic reconstructions. 
    9. 2021-10-13 freeart [ https://ftp-master.debian.org/new/freeart_3.3.0+ds1-1.html | https://ftp-master.debian.org/new/freeart_3.3.0+ds1-1.html ] in NEW: Software library for X-Ray data analysis, tomography 
    10. 2021-10-21 tomopy [ https://ftp-master.debian.org/new/tomopy_1.10.4+ds1-1.html | https://ftp-master.debian.org/new/tomopy_1.10.4+ds1-1.html ] in NEW: Python package for tomographic data processing and image reconstruction, on top of Astra and UFO. 
    11. 2021-10-26 mumax3 [ https://ftp-master.debian.org/new/mumax3_3.10-1.html | https://ftp-master.debian.org/new/mumax3_3.10-1.html ] in NEW: GPU-accelerated micromagnetic simulator 

Other packages are WIP. 

Emmanuel. 

-- 
/ ___| __/\_ | | | ____|_ _| | FARHI Emmanuel 
\___ \ \ | | | _| | || | Div Exp/Data Reduction and Analysis Team 
___) /_ _ | |___| |___ | || |___ Tel : +33 (1) 69 35 96 04 
|____/ \/ |_____|_____|___|_____| Saint-Aubin BP 48 - 91192 GIF/YVETTE CEDEX 
SYNCHROTRON http://www.synchrotron-soleil.fr 
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-pan-maintainers/attachments/20211120/8cdfafda/attachment.htm>