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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-22 16:29:21
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Your error is: NOT READING the… MANUAL. In the installation instructions there is a line about this and fix, involving running a "xattr - cr" command. That is a general OSX binaries fix, not just PyMca. Alexandre ____________________________________________________________________________ | Pr. Alexandre Simionovici | |Membre de l'Institut Universitaire de France Université Grenoble Alpes | |ISTerre - Institut des Sciences de la Terre, UGA/CNRS tel. +33-(0)4.76.63.51.96 | |Observatoire des Sciences de l'Univers de Grenoble fax. +33-(0)4.76.51.40.58| |UMR 5275, Maison des Géosciences, ale...@un...| |CS 40700, 38058 Grenoble Cedex 9, FRANCE | |------------------------------------------------------------------------------------------------------------------------------| -----Message original----- De: PyMca <pym...@li...> à: pymca-users <pym...@li...> Envoyé: dimanche 22 septembre 2024 12:33 CEST Sujet : [PyMca] can't open the downloaded software Hi, I just downloaded the software but am unable to open it. Any ideas on what I am doing wrong? Thanks for the help. Zeynep Zeynep Delen Nircan, Ph.D www.egedeatolye.org |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-22 10:43:43
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Fixed it already, by googling the problem. Thank you. > On 22 Sep 2024, at 11:44, PyMca general purpose mailing list. via PyMca-users <pym...@li...> wrote: > > Hi, > I just downloaded the software but am unable to open it. > Any ideas on what I am doing wrong? > Thanks for the help. > Zeynep > > > <image.png> > Zeynep Delen Nircan, Ph.D > www.egedeatolye.org > > > > <Screenshot 2024-09-22 at 11.39.46.png> > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-22 09:10:11
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Hi, I just downloaded the software but am unable to open it. Any ideas on what I am doing wrong? Thanks for the help. Zeynep  Zeynep Delen Nircan, Ph.D www.egedeatolye.org  |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-18 19:47:04
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Hi , Thanks for your quick reply. As a new PyMca user, I'm following the tutorial " XRF maps and extract elemental maps using PyMCA - LUCIA Beamline - YouTube <https://www.youtube.com/watch?v=DEUK_a8Co98> " on YouTube. I'm having trouble finding the necessary exercise files. Could you please provide a link to where I can download them or explain how I can access them? Thanks, Mohammad Mohammad Rezaei Pandari Ph.D. in Photonics Gmail: rez...@gm... On Tue, Sep 17, 2024 at 11:27 PM PyMca general purpose mailing list. < pym...@li...> wrote: > Dear mohammad, > > First to be specific with what you intend to use PyMCA for? Otherwise such > a general question will be difficult to answer/ assist. > > On Tue, Sep 17, 2024, 22:20 PyMca general purpose mailing list. < > pym...@li...> wrote: > >> Dear PyMCA Community, >> >> I am attempting to follow the PyMCA tutorials but am unable to locate any >> example files. These files would be invaluable in helping me understand the >> software's capabilities and learn how to apply them effectively. >> >> Could you please provide me with some example files that I can use to >> practice with? >> >> Any assistance you can provide would be greatly appreciated. >> >> Best regards, >> Mohammad Rezaei Pandari >> Ph.D. in Photonics >> Gmail: rez...@gm... >> >> >> >> [image: Mailsuite] Sent with Mailsuite · Unsubscribe >> <https://mailtrack.io/en/privacy/opt-out/unsubscribe/db57b72b8cb80248eeb1b79bb3853ac2d9b309e5/92ac6a0ab4c48fe871201576ec651d9f03c1e0480abdeccf70f0daeeb1bf883bd8d211e0127f13385948c75fe7e36943675fd5de47aa107130ed2111755619b8> >> ۰۳/۰۶/۲۷, ۲۲:۴۸:۳۳ >> _______________________________________________ >> PyMca-users mailing list >> PyM...@li... >> https://lists.sourceforge.net/lists/listinfo/pymca-users >> > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users > |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-17 19:57:36
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Dear mohammad, First to be specific with what you intend to use PyMCA for? Otherwise such a general question will be difficult to answer/ assist. On Tue, Sep 17, 2024, 22:20 PyMca general purpose mailing list. < pym...@li...> wrote: > Dear PyMCA Community, > > I am attempting to follow the PyMCA tutorials but am unable to locate any > example files. These files would be invaluable in helping me understand the > software's capabilities and learn how to apply them effectively. > > Could you please provide me with some example files that I can use to > practice with? > > Any assistance you can provide would be greatly appreciated. > > Best regards, > Mohammad Rezaei Pandari > Ph.D. in Photonics > Gmail: rez...@gm... > > > > [image: Mailsuite] Sent with Mailsuite · Unsubscribe > <https://mailtrack.io/en/privacy/opt-out/unsubscribe/db57b72b8cb80248eeb1b79bb3853ac2d9b309e5/92ac6a0ab4c48fe871201576ec651d9f03c1e0480abdeccf70f0daeeb1bf883bd8d211e0127f13385948c75fe7e36943675fd5de47aa107130ed2111755619b8> > ۰۳/۰۶/۲۷, ۲۲:۴۸:۳۳ > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users > |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-09-17 19:19:50
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Dear PyMCA Community, I am attempting to follow the PyMCA tutorials but am unable to locate any example files. These files would be invaluable in helping me understand the software's capabilities and learn how to apply them effectively. Could you please provide me with some example files that I can use to practice with? Any assistance you can provide would be greatly appreciated. Best regards, Mohammad Rezaei Pandari Ph.D. in Photonics Gmail: rez...@gm... [image: Mailsuite] Sent with Mailsuite · Unsubscribe <https://mailtrack.io/en/privacy/opt-out/unsubscribe/db57b72b8cb80248eeb1b79bb3853ac2d9b309e5/92ac6a0ab4c48fe871201576ec651d9f03c1e0480abdeccf70f0daeeb1bf883bd8d211e0127f13385948c75fe7e36943675fd5de47aa107130ed2111755619b8> ۰۳/۰۶/۲۷, ۲۲:۴۸:۳۳ |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-13 16:07:13
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Dear Edward and PyMCA at large users, Let's avoid using Armando to solve all our XRF related problems and do our own homework. He is really overbooked, having accepted a much more demanding position, and is still helping with PyMCA routine Q&A, although he notified us that he will stop doing so and try to get a younger colleague from ESRF SciSoft team to step in his shoes - mission impossible, if you ask me... Let's then only report potential bugs or failures of PyMCA to Armando, but direct to the whole PyMCA community (≈ 4000 users) specific questions. As it happened, that's what Dario (user) did, and we should call upon our colleagues with some background in XRF and PyMCA for help. Thank you for your understanding and again, Armando, a lot of thanks for bringing us to the 21st century, after the days of Axil, QXAS, etc ca. 1985. Thanks also to Tom Schoonjans and Laszlo Vincze, who turned their Monte-Carlo code into a PyMCA plugin. Nowadays, new codes appear and new programming environments facilitate these developments, such as "machine learning" or more general AI. We are nearing the moment when you will be able to ask Gemini to extract from an XRF spectrum you have measured, be it with X-ray tubes, Synchrotron Radiation, Gamma sources, plasma sources, etc, the list of elements and their quantities, minus a few low Z elements like H - C. Let's enjoy the last minutes of full control, before SkyNet machines take over! Happy fitting! Alexandre De: "PyMca general purpose mailing list." <pym...@li...> À: "pymca-users" <pym...@li...> Envoyé: Mardi 13 Août 2024 16:52:54 Objet: Re: [PyMca] (no subject) Dear members, Thanks a lot Armando for the feedback. I tried to export the energy table and it really solved the problem. It was possible to include the K beta for both Compton and Rayleigh scatter. The current challenge is now to achieve a situation whereby the elemental peaks in the experimental spectrum are reproduced in simulated counterparts. Kindly see the attached spectrum. Kind regards Edward Sichangi On Tue, Aug 13, 2024 at 5:50 PM PyMca general purpose mailing list. < [ mailto:pym...@li... | pym...@li... ] > wrote: Thanks a lot Armando for the feedback. I tried to export the energy table and it really solved the problem. It was possible to include the K beta for both Compton and Rayleigh scatter. The current challenge is now to achieve a situation whereby the elemental peaks in the experimental spectrum are reproduced in simulated counterparts. Kindly see the attached spectrum. Kind regards Edward Sichangi On Mon, Aug 12, 2024 at 12:03 PM PyMca general purpose mailing list. < [ mailto:pym...@li... | pym...@li... ] > wrote: BQ_BEGIN Dear All, To include an excitation energy for consideration as a scatter peak in PyMca, two things have to happen: - The energy has to be enabled (use selected), with a positive energy and a positive weight. - The underlying color has to be "pink". In the current version the only way to toggle the use of an energy for consideration in the list of the scattered energies is to export the energy table and to change the value from 0 to 1 in the scatterlist. In any case, and I guess it is what is happening to the original poster, both the Ka and the Kb lines have to figure as excitation energies. I guess only one of them appears in the original poster's fit configuration. (see BEAM Tab of the fit configuration widget) Next versions of PyMca will allow to toggle the use as characteristic energy just by a double click on the cell: [ https://github.com/vasole/pymca/pull/1085 | https://github.com/vasole/pymca/pull/1085 ] You can try to enable that functionality by replacing the EnergyTable.py file in your PyMca installation by the attached one. In default windows installations, the file is under the directory: C:\Program Files\PyMca 5.9.3\lib\PyMca5\PyMcaGui\physics\xrf Best regards, Armando On 10/08/2024 15:28, PyMca general purpose mailing list. wrote: BQ_BEGIN Dear Dario, Thank you for your prompt response. My secondary target is Mo. As you can see from the graph, the simulated spectrum ends without the K beta for Compton and Rayleigh scatter, but the experimental one has both K apha and K beta for both scattering. What could be the issue? _______________________________________________ PyMca-users mailing list [ mailto:PyM...@li... | PyM...@li... ] [ https://lists.sourceforge.net/lists/listinfo/pymca-users | https://lists.sourceforge.net/lists/listinfo/pymca-users ] BQ_END _______________________________________________ PyMca-users mailing list [ mailto:PyM...@li... | PyM...@li... ] [ https://lists.sourceforge.net/lists/listinfo/pymca-users | https://lists.sourceforge.net/lists/listinfo/pymca-users ] BQ_END _______________________________________________ PyMca-users mailing list PyM...@li... https://lists.sourceforge.net/lists/listinfo/pymca-users -- [ http://www.univ-grenoble-alpes.fr/ ] Alexandre Simionovici Distinguished Professor Member of the Institut Universitaire de France 33 (0)4 76 63 51 9 6 ISTerre Laboratory, Room 341 Observatory of Sciences of the Universe University of Grenoble Alpes, CS 40700 38058, Grenoble cedex 9, FRANCE |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-13 14:53:20
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Dear members, Thanks a lot Armando for the feedback. I tried to export the energy table and it really solved the problem. It was possible to include the K beta for both Compton and Rayleigh scatter. The current challenge is now to achieve a situation whereby the elemental peaks in the experimental spectrum are reproduced in simulated counterparts. Kindly see the attached spectrum. Kind regards Edward Sichangi On Tue, Aug 13, 2024 at 5:50 PM PyMca general purpose mailing list. < pym...@li...> wrote: > Thanks a lot Armando for the feedback. I tried to export the energy table > and it really solved the problem. It was possible to include the K beta for > both Compton and Rayleigh scatter. The current challenge is now to achieve > a situation whereby the elemental peaks in the experimental spectrum are > reproduced in simulated counterparts. > > Kindly see the attached spectrum. > > Kind regards > Edward Sichangi > > On Mon, Aug 12, 2024 at 12:03 PM PyMca general purpose mailing list. < > pym...@li...> wrote: > >> Dear All, >> >> To include an excitation energy for consideration as a scatter peak in >> PyMca, two things have to happen: >> >> - The energy has to be enabled (use selected), with a positive energy >> and a positive weight. >> >> - The underlying color has to be "pink". >> >> In the current version the only way to toggle the use of an energy for >> consideration in the list of the scattered energies is to export the energy >> table and to change the value from 0 to 1 in the scatterlist. >> >> In any case, and I guess it is what is happening to the original poster, >> both the Ka and the Kb lines have to figure as excitation energies. I guess >> only one of them appears in the original poster's fit configuration. (see >> BEAM Tab of the fit configuration widget) >> >> Next versions of PyMca will allow to toggle the use as characteristic >> energy just by a double click on the cell: >> >> https://github.com/vasole/pymca/pull/1085 >> >> You can try to enable that functionality by replacing the EnergyTable.py >> file in your PyMca installation by the attached one. >> >> In default windows installations, the file is under the directory: >> >> C:\Program Files\PyMca 5.9.3\lib\PyMca5\PyMcaGui\physics\xrf >> >> Best regards, >> >> Armando >> On 10/08/2024 15:28, PyMca general purpose mailing list. wrote: >> >> Dear Dario, >> >> Thank you for your prompt response. My secondary target is Mo. As you can >> see from the graph, the simulated spectrum ends without the K beta for >> Compton and Rayleigh scatter, but the experimental one has both K apha and >> K beta for both scattering. What could be the issue? >> >> _______________________________________________ >> PyMca-users mailing list >> PyM...@li... >> https://lists.sourceforge.net/lists/listinfo/pymca-users >> > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users > |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-13 14:50:14
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Thanks a lot Armando for the feedback. I tried to export the energy table and it really solved the problem. It was possible to include the K beta for both Compton and Rayleigh scatter. The current challenge is now to achieve a situation whereby the elemental peaks in the experimental spectrum are reproduced in simulated counterparts. Kindly see the attached spectrum. Kind regards Edward Sichangi On Mon, Aug 12, 2024 at 12:03 PM PyMca general purpose mailing list. < pym...@li...> wrote: > Dear All, > > To include an excitation energy for consideration as a scatter peak in > PyMca, two things have to happen: > > - The energy has to be enabled (use selected), with a positive energy and > a positive weight. > > - The underlying color has to be "pink". > > In the current version the only way to toggle the use of an energy for > consideration in the list of the scattered energies is to export the energy > table and to change the value from 0 to 1 in the scatterlist. > > In any case, and I guess it is what is happening to the original poster, > both the Ka and the Kb lines have to figure as excitation energies. I guess > only one of them appears in the original poster's fit configuration. (see > BEAM Tab of the fit configuration widget) > > Next versions of PyMca will allow to toggle the use as characteristic > energy just by a double click on the cell: > > https://github.com/vasole/pymca/pull/1085 > > You can try to enable that functionality by replacing the EnergyTable.py > file in your PyMca installation by the attached one. > > In default windows installations, the file is under the directory: > > C:\Program Files\PyMca 5.9.3\lib\PyMca5\PyMcaGui\physics\xrf > > Best regards, > > Armando > On 10/08/2024 15:28, PyMca general purpose mailing list. wrote: > > Dear Dario, > > Thank you for your prompt response. My secondary target is Mo. As you can > see from the graph, the simulated spectrum ends without the K beta for > Compton and Rayleigh scatter, but the experimental one has both K apha and > K beta for both scattering. What could be the issue? > > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users > |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-12 09:03:06
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Dear All, To include an excitation energy for consideration as a scatter peak in PyMca, two things have to happen: - The energy has to be enabled (use selected), with a positive energy and a positive weight. - The underlying color has to be "pink". In the current version the only way to toggle the use of an energy for consideration in the list of the scattered energies is to export the energy table and to change the value from 0 to 1 in the scatterlist. In any case, and I guess it is what is happening to the original poster, both the Ka and the Kb lines have to figure as excitation energies. I guess only one of them appears in the original poster's fit configuration. (see BEAM Tab of the fit configuration widget) Next versions of PyMca will allow to toggle the use as characteristic energy just by a double click on the cell: https://github.com/vasole/pymca/pull/1085 You can try to enable that functionality by replacing the EnergyTable.py file in your PyMca installation by the attached one. In default windows installations, the file is under the directory: C:\Program Files\PyMca 5.9.3\lib\PyMca5\PyMcaGui\physics\xrf Best regards, Armando On 10/08/2024 15:28, PyMca general purpose mailing list. wrote: > Dear Dario, > > Thank you for your prompt response. My secondary target is Mo. As you > can see from the graph, the simulated spectrum ends without the K beta > for Compton and Rayleigh scatter, but the experimental one has both K > apha and K beta for both scattering. What could be the issue? |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-10 13:28:54
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Dear Dario, Thank you for your prompt response. My secondary target is Mo. As you can see from the graph, the simulated spectrum ends without the K beta for Compton and Rayleigh scatter, but the experimental one has both K apha and K beta for both scattering. What could be the issue? On Sat, Aug 10, 2024 at 4:15 PM PyMca general purpose mailing list. < pym...@li...> wrote: > Dear Edward, > > Is your X-ray source out of a Mo target? Your data matches with Kalpha and > Kbeta emission from Molybdenum, which gives you the corresponding two of > each Rayleigh and Compton peaks. > > Dario > > Sent from Outlook for Android <https://aka.ms/AAb9ysg> > ------------------------------ > *From:* PyMca general purpose mailing list. < > pym...@li...> > *Sent:* Saturday, August 10, 2024 12:36:59 PM > *To:* pym...@li... <pym...@li... > > > *Subject:* [PyMca] (no subject) > > Dear members, > > I am trying to perform quantitative analysis using XMIMSIM-PyMca program. > I would like to compare experimental and simulated spectrum. However, the > simulated and experimental spectrum are not resembling one another. > Furthermore, the Compton and Rayleigh scatter peaks in the simulated > spectrum are not matching the experimental. For instance, the simulated > spectrum has only Compton K-alpha and Rayleigh K-alpha but not > their corresponding K-beta peaks for Compton and Rayleigh scatter peaks. > > I have also noted that the simulated spectrum ends at the value of beam > excitation energy (17.5 keV) while the experimental one extends beyond > this. What could be the source of these? > > Kindly see the attached spectrum > > Edward Sichangi > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users > |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-10 13:15:28
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Dear Edward, Is your X-ray source out of a Mo target? Your data matches with Kalpha and Kbeta emission from Molybdenum, which gives you the corresponding two of each Rayleigh and Compton peaks. Dario Sent from Outlook for Android<https://aka.ms/AAb9ysg> ________________________________ From: PyMca general purpose mailing list. <pym...@li...> Sent: Saturday, August 10, 2024 12:36:59 PM To: pym...@li... <pym...@li...> Subject: [PyMca] (no subject) Dear members, I am trying to perform quantitative analysis using XMIMSIM-PyMca program. I would like to compare experimental and simulated spectrum. However, the simulated and experimental spectrum are not resembling one another. Furthermore, the Compton and Rayleigh scatter peaks in the simulated spectrum are not matching the experimental. For instance, the simulated spectrum has only Compton K-alpha and Rayleigh K-alpha but not their corresponding K-beta peaks for Compton and Rayleigh scatter peaks. I have also noted that the simulated spectrum ends at the value of beam excitation energy (17.5 keV) while the experimental one extends beyond this. What could be the source of these? Kindly see the attached spectrum Edward Sichangi |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-10 10:37:19
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Dear members, I am trying to perform quantitative analysis using XMIMSIM-PyMca program. I would like to compare experimental and simulated spectrum. However, the simulated and experimental spectrum are not resembling one another. Furthermore, the Compton and Rayleigh scatter peaks in the simulated spectrum are not matching the experimental. For instance, the simulated spectrum has only Compton K-alpha and Rayleigh K-alpha but not their corresponding K-beta peaks for Compton and Rayleigh scatter peaks. I have also noted that the simulated spectrum ends at the value of beam excitation energy (17.5 keV) while the experimental one extends beyond this. What could be the source of these? Kindly see the attached spectrum Edward Sichangi |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-08-10 10:35:32
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Dear members, I am trying to perform quantitative analysis using XMIMSIM-PyMca program. I would like to compare experimental and simulated spectrum. However, the simulated and experimental spectrum are not resembling one another. Furthermore, the Compton and Rayleigh scatter peaks in the simulated spectrum are not matching the experimental. For instance, the simulated spectrum has only Compton K-alpha and Rayleigh K-alpha but not their corresponding K-beta peaks for Compton and Rayleigh scatter peaks. I have also noted that the simulated spectrum ends at the value of beam excitation energy (17.5 keV) while the experimental one extends beyond this. What could be the source of these? Kindly see the attached spectrum Edward Sichangi |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-07-16 18:43:10
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Hi Gosia,
You can easily read EDF Files, but I would recommend you to get used to
HDF5 files and to use the HDF5 output.
The piece of code below reads the first image of two EDF files and save
the sum to a new file.
Best regards,
Armando
import sys
from PyMca5.PyMcaIO import EdfFile
if __name__ == "__main__":
if len(sys.argv) < 4:
print("Usage: python readedf.py edf1 edf2 output")
sys.exit()
edf1 = EdfFile.EdfFile(sys.argv[1], "r")
edf2 = EdfFile.EdfFile(sys.argv[2], "r")
data1 = edf1.GetData(0)
data2 = edf2.GetData(0)
out = EdfFile.EdfFile(sys.arv[3], "w")
# write the sum of the two datasets with the default
# header dictionary
out.WriteImage({}, data1 + data2)
Le 2024-06-30 13:09, PyMca general purpose mailing list. via PyMca-users
a écrit :
> Hi Armando,
>
> I would like to automate my data analysis workflow with PyMca and write
> a script that performs basic math operations on edf image files, the
> same way PyMca does in the RGB Image Calculator. Is there a PyMca
> function I could call in a script to perform a specified math operation
> on two given edf files and save the resulting image as a new edf file?
>
> Thank you,
>
> Gosia
>
> --
>
> Gosia Korbas, Ph.D.
>
> Beamline Scientist - Microscopy
>
> X-ray Science Division
>
> Argonne National Laboratory
>
> _______________________________________________
> PyMca-users mailing list
> PyM...@li...
> https://lists.sourceforge.net/lists/listinfo/pymca-users |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-07-03 15:20:11
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Dear Amando, I tried to perform quantitative analysis for the steel sample spectrum provided in Pymca using XMI-MSIM PYMCA and the output files I got are attached. Kindly let me know which file contains the concentrations and in which units. Kind regards Edward Sichangi [image: Screenshot (4).png] |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-30 17:09:46
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Hi Armando, I would like to automate my data analysis workflow with PyMca and write a script that performs basic math operations on edf image files, the same way PyMca does in the RGB Image Calculator. Is there a PyMca function I could call in a script to perform a specified math operation on two given edf files and save the resulting image as a new edf file? Thank you, Gosia -- Gosia Korbas, Ph.D. Beamline Scientist – Microscopy X-ray Science Division Argonne National Laboratory |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-22 12:12:43
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I hope you are well. I am trying to use the XMI-MSIM Pymca plug-in for quantitative analysis. The Generated output files I see do not contain files for quantification results in wt %. What I see is mass fractions which are exactly similar to the ones obtained by default fundamental parameters in Pymca. I would like you to help me find where the results in wt % can be obtained/found. Kindly assist me understand. Kind regards Edward, PhD in Physics candidate University of Nairobi, kenya |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-18 07:25:12
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Dear Armando, It worked, thank you ! I can now open files from the main window and with the ROI imaging tool. But the RGB correlator tool still behaves as before: when I try to open a file, it seems to search a disk that it can’t access and gives timeout errors. If you can help with this as well, I’ll be very glad. Many thanks Giulia De : PyMca general purpose mailing list. <pym...@li...> Envoyé : lundi 17 juin 2024 17:47 À : pym...@li... Objet : Re: [PyMca] problem opening files - cannot find Pymca.ini Dear Giulia, Please start PyMca and in the File menu select "Save default settings". That will generate a PyMca.ini file that you will be able to edit. Other possibility is to start PyMca from the command prompt: >"c:\Program Files\PyMca 5.9.2\PyMcaMain.exe" --nativefiledialogs=1 and to do the "Save default settings" operation described above. That way you will not need to edit the PyMc.ini file since it will be generated with the correct settings. Best regards, Armando Le 2024-06-17 11:02, PyMca general purpose mailing list. a écrit : Dear Armando, I am having troubles opening files with PyMca 5.9.2 under Windows 10. When I click on the open file icon, the file search dialog box is frozen, and in the meantime the console gives timeout errors as “SHGetFileInfo() timed out for C:\Program Files\PyMca 5.9.2” I found a similar problem in this mailing list: you said that it happens when the disk is not accessible, and you suggested to circumvent the problems by using native file dialogs. So, I intended to edit the PyMca.ini file and replace the line: nativeFileDialogs = False by: nativeFileDialogs = 1” , as you previously suggested. But I cannot find any PyMca.ini file. I guess the information available here is up to date: http://www.silx.org/doc/PyMca/dev/customization/settings/index.html#id1 I reinstalled pymca 5.9.2 and checked that the folder \documents\Pymca is created after the program is launched for the first time. But it only contains empty folders (data, fit, plugins) and a file fontlist-v330.json What’s wrong? Any suggestion is welcome. Many thanks Giulia _______________________________________________ PyMca-users mailing list PyM...@li...<mailto:PyM...@li...> https://lists.sourceforge.net/lists/listinfo/pymca-users |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-17 15:47:00
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Dear Giulia, Please start PyMca and in the File menu select "Save default settings". That will generate a PyMca.ini file that you will be able to edit. Other possibility is to start PyMca from the command prompt: > "c:\Program Files\PyMca 5.9.2\PyMcaMain.exe" --nativefiledialogs=1 and to do the "Save default settings" operation described above. That way you will not need to edit the PyMc.ini file since it will be generated with the correct settings. Best regards, Armando Le 2024-06-17 11:02, PyMca general purpose mailing list. a écrit : > Dear Armando, > > I am having troubles opening files with PyMca 5.9.2 under Windows 10. > When I click on the open file icon, the file search dialog box is > frozen, and in the meantime the console gives timeout errors as > "SHGetFileInfo() timed out for C:\Program Files\PyMca 5.9.2" > > I found a similar problem in this mailing list: you said that it > happens when the disk is not accessible, and you suggested to > circumvent the problems by using native file dialogs. > > So, I intended to edit the PyMca.ini file and replace the line: > nativeFileDialogs = False > > by: nativeFileDialogs = 1" , as you previously suggested. > > But I cannot find any PyMca.ini file. > > I guess the information available here is up to date: > http://www.silx.org/doc/PyMca/dev/customization/settings/index.html#id1 > [1] > > I reinstalled pymca 5.9.2 and checked that the folder \documents\Pymca > is created after the program is launched for the first time. But it > only contains empty folders (data, fit, plugins) and a file > fontlist-v330.json > > What's wrong? > > Any suggestion is welcome. > > Many thanks > > Giulia > > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users Links: ------ [1] http://www.silx.org/doc/PyMca/dev/customization/settings/index.html#id1 |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-17 15:02:20
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Dear Armando, I am having troubles opening files with PyMca 5.9.2 under Windows 10. When I click on the open file icon, the file search dialog box is frozen, and in the meantime the console gives timeout errors as "SHGetFileInfo() timed out for C:\Program Files\PyMca 5.9.2" I found a similar problem in this mailing list: you said that it happens when the disk is not accessible, and you suggested to circumvent the problems by using native file dialogs. So, I intended to edit the PyMca.ini file and replace the line: nativeFileDialogs = False by: nativeFileDialogs = 1" , as you previously suggested. But I cannot find any PyMca.ini file. I guess the information available here is up to date: http://www.silx.org/doc/PyMca/dev/customization/settings/index.html#id1 I reinstalled pymca 5.9.2 and checked that the folder \documents\Pymca is created after the program is launched for the first time. But it only contains empty folders (data, fit, plugins) and a file fontlist-v330.json What's wrong? Any suggestion is welcome. Many thanks Giulia |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-12 08:42:44
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Dear Armando, We would like to ask about the final results after perform fitting (Table) generated from PyMca. They comprise of Fit area and Sigma according to each element determined. My question is? 1 Fit area reported in the column, is it the net area of the certain element? I mean net area which is subtracted background nearby already. 2 Sigma reported in the next column, is it the background counts corresponding to the same row of Fit area mentioned? Your kind response is very grateful. With my best regards, Chomphunuch |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-06 15:13:33
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Dear Dario, The fastest fitting mode of PyMca is the FastXRFLinearFit, however, you can achieve very similar speeds with the McaAdvancedFitBatch provided the fit configuration file is properly optimized. What is slow in PyMca is the configuration of the fit. For instance, if you take a look at the attached example, you should aim at calling the configure method only once and then loop for all the spectra. It is what the McaAdvancedFitBatch module is doing. I hope that helps. Best regards, Armando On 06/06/2024 16:26, PyMca general purpose mailing list. wrote: > > Dear Armando, > > First, I hope all the best for your new path at the ESRF and all your > support over the last years! > > Second, I have an specific question about running spectra fitting in > python. We have typically using the tool: > > McaAdvancedFitBatch.McaAdvancedFitBatch() > > Over the last years, to run batch fittings of spectra, typically out > of 2D/3D maps. Works supe nice and fast! Now, we are trying to set a > live fitting during measurement, to analyze deconvolve signal of > elements instead of regions of interest – with the goal of having a > more dynamic decision power during experiments. The problem in using > “McaAdvancedFitBatch” is that is not so fast when the array contains > only one spectrum instead of thousands, due to some initial > calculations before doing the actual fitting of the spectrum. Do you > have any solution for that, that I did not manage to find myself? > > Thanks a lot in advance, > > Dario > > > > _______________________________________________ > PyMca-users mailing list > PyM...@li... > https://lists.sourceforge.net/lists/listinfo/pymca-users |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-06-06 14:41:00
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Dear Armando, First, I hope all the best for your new path at the ESRF and all your support over the last years! Second, I have an specific question about running spectra fitting in python. We have typically using the tool: McaAdvancedFitBatch.McaAdvancedFitBatch() Over the last years, to run batch fittings of spectra, typically out of 2D/3D maps. Works supe nice and fast! Now, we are trying to set a live fitting during measurement, to analyze deconvolve signal of elements instead of regions of interest - with the goal of having a more dynamic decision power during experiments. The problem in using "McaAdvancedFitBatch" is that is not so fast when the array contains only one spectrum instead of thousands, due to some initial calculations before doing the actual fitting of the spectrum. Do you have any solution for that, that I did not manage to find myself? Thanks a lot in advance, Dario |
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From: PyMca g. p. m. list. <pym...@li...> - 2024-05-22 06:58:01
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Dear PyMca user, Sorry for abusing of this mailing list with a JOB announcement, but I think it is also of your interest. My new duties at the ESRF do not allow me to devote as much time as before to software development, therefore my former position has been opened. PyMca maintenance and development will only be part of the duties, since the position targets many more exciting subjects: https://esrf.gestmax.eu/1759/1/ada-engineer/en_US Please, do not hesitate to forward this mail to anybody you consider appropriate to the position. Best regards, Armando |
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