Hi to all, I found that there is actually an "horae" package in ubuntu. It is a bit old (0.8.061 for athena) but it takes care of all the installing. Ifeffit is also packaged, both by Carlo Segre . Juan El mié., 23 nov. 2016 a las 21:56, Juan de la figuera (< juan.delafiguera@gmail.com>) escribió:

BTW, it does not seem to be a problem with locale, I set it to "C" beforehand:

juan@maghemite:xraylarch$ locale LANG=C LANGUAGE=C LC_CTYPE="C" LC_NUMERIC="C" LC_TIME="C" LC_COLLATE="C" LC_MONETARY="C" LC_MESSAGES="C" LC_PAPER="C" LC_NAME="C" LC_ADDRESS="C" LC_TELEPHONE="C" LC_MEASUREMENT="C" LC_IDENTIFICATION="C" LC_ALL=C

El mié., 23 nov. 2016 a las 19:43, Juan de la figuera (< juan.delafiguera@gmail.com>) escribió:

Dear all,

I have been installing demeter from git under ubuntu 16.04 LTS, following the non-root instructions from: https://gist.github.com/waveform80/3959252

I also installed xraylarch from git. Xaylarch is only missing: #=== Warning: Some recommended Python Packages are missing: epics: needed for using the EPICS control system pyFAI: needed for xrd modules

It seems to work, but when I try to open a file that can be open properly from Athena installed on Windows, I get:

Trying Larch server: /home/juan/perl5/lib/perl5/x86_64-linux-gnu-thread-multi/Demeter/share/ini/larch_server.ini

Trying Larch server: larch_server -p 4968 start larch_server port=4968: started

gnuplot> set xrange [ 6900130000 : 7955610000 ] ^ line 0: warning: integer overflow; changing to floating point

gnuplot> set xrange [ 6900130000 : 7955610000 ] ^ line 0: warning: integer overflow; changing to floating point

and although it opens the data in a gnuplot window, the scale is off (7x10^9 instead of 7x10^3). I am assuming once it is confused about the scale, it makes a mess with the data. The output of probe -bv is: t/000_ifeffit.t ......... 1..6 ok 1 - show ok 2 - show arrays: ok 3 - get_scalar 1.2345 ok 4 - put scalar ok 5 - put/get_string: my.xmu ok 6 - put/get_array: ok t/001_base.t ............ 1..24 Trying Larch server: /home/juan/soft/demeter/blib/lib/Demeter/share/ini/larch_server.ini Trying Larch server: larch_server -p 4969 start larch_server port=4969: started ok 1 - new() works ok 2 - group is set: orihs ok 3 - unique group names: orihs & bcxkm ok 4 - installation location identified ok 5 - identity string ok 6 - generic object is not plottable ok 7 - generic object has no data ok 8 - Project role works ok 9 - demeter can do introspection ok 10 - ifeffit disposal mode flag: 1 ok 11 - handle unknown mode gracefully ok 12 - other disposal modes all false ok 13 - turn on screen disposal mode flag ok 14 - turn on file disposal mode flag ok 15 - turn on buffer disposal mode flag ok 16 - unknown window not recognized ok 17 - known element (Cu) is recognized ok 18 - unknown element (Ci) not recognized ok 19 - simple template works not ok 20 - simple disposal to Ifeffit: string

# Failed test 'simple disposal to Ifeffit: string' # at t/001_base.t line 69. not ok 21 - simple disposal to Ifeffit: scalar

# Failed test 'simple disposal to Ifeffit: scalar' # at t/001_base.t line 70. Use of uninitialized value in numeric eq (==) at t/001_base.t line 71. not ok 22 - simple disposal to Ifeffit: array

# Failed test 'simple disposal to Ifeffit: array' # at t/001_base.t line 71. ok 23 - simple disposal wrapper works ok 24 - plot_with works # Looks like you failed 3 tests of 24.

Any help would be appreciated.

Juan

Hi Juan, I just installed demeter and larch on an Ubuntu 16.04lts system today. I can reproduce something like your error. I use the 10K Cu data in the examples folder. If I import it and don't select the numerator on import, the plot window has issues (~10^307 axis limit), but the file gets listed in the data list. I can get 10^9 for the energy axis by specifying keV instead of eV for the import energy. i.e. Matt's question: Did you import the data correctly? (and why 10^9 if it is supposedly multiplying by 1000?...would have thought 10^6...) Did you import a number of datasets with mixed keV and eV energy scales? I did that once where the first file was in keV and subsequent ones in eV and the energy scale was decidedly off for the subsequent ones. cheers, Robert On 11/23/2016 7:45 PM, Matt Newville wrote:

Hi Juan,

On Wed, Nov 23, 2016 at 12:43 PM, Juan de la figuera mailto:juan.delafiguera@gmail.com> wrote:

Dear all,

I have been installing demeter from git under ubuntu 16.04 LTS, following the non-root instructions from: https://gist.github.com/waveform80/3959252 https://gist.github.com/waveform80/3959252

I also installed xraylarch from git. Xaylarch is only missing: #=== Warning: Some recommended Python Packages are missing: epics: needed for using the EPICS control system pyFAI: needed for xrd modules

It seems to work, but when I try to open a file that can be open properly from Athena installed on Windows, I get:

Trying Larch server: /home/juan/perl5/lib/perl5/x86_64-linux-gnu-thread-multi/Demeter/share/ini/larch_server.in http://larch_server.ini Trying Larch server: larch_server -p 4968 start larch_server port=4968: started

gnuplot> set xrange [ 6900130000 : 7955610000 ] ^ line 0: warning: integer overflow; changing to floating point

gnuplot> set xrange [ 6900130000 : 7955610000 ] ^ line 0: warning: integer overflow; changing to floating point

and although it opens the data in a gnuplot window, the scale is off (7x10^9 instead of 7x10^3). I am assuming once it is confused about the scale, it makes a mess with the data.

Did you import the data correctly?

Did you try this with more than one data file?

Why did you not include that data file in your request for help?

If you had included the (or a) file giving you trouble, it would allow someone else to try to reproduce the problem, which might actually lead to an answer.

--Matt

PS: Athena version 0.8.061 is more than 5 years old and is not supported.

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Hi Juan, I can open your file. It displays without issue. My system is amd64 with ubuntu 16.04 LTS. The version of Demeter I cloned from git is 0.9.26 (using the git clone instruction), mostly following the 'David Hughes' guide" from here https://bruceravel.github.io/demeter/documents/SinglePage/demeter_nonroot.ht... which seems to be what you found elsewhere. There were a couple of differences I had to work around: libpng3-dev had libpng12-dev substituted for it by apt libgif4 and libwxgtk2.8-dev were not found. I manually installed giflib-5.1.4 and apt installed gtk2.0 I had to ctrl-c out of a loop regarding "can't find apache" when doing ./Build installdeps (Googling suggests this might be due to perl/build/cpan trying to use mod_perl-1.31 instead of -2.0.4 since 1.31 is slightly newer). I am still tweaking my system, so this is a fresh install of demeter this morning - no larch yet, so I get a 'no larch_server' message, but your file displays without issue. You indicated you have version 0.9.24. What other differences did you encounter? -R. On 11/25/2016 2:23 AM, Juan de la figuera wrote:

Hi,

I send one of the data files we are currently acquiring (SPLINE beamline at ESRF).

I have checked that my compiled 0.9.24 version works with the examples cu10k.dat file, but it is true, as Robert confirmed, that strange things happen if you mark ev instead of kev.

With our data files like the one enclosed, dathena chokes on the scale. Actually it opens the window but it has x10^9 scale. On the other hand, the 0.9.24 for Windows opens the files ok. Now, the files are MSDOS-ended files, I tried converting them to Linux-ending, but same result. I also tried putting a # comment on the first line.

I stress that Athena 0.8.061 (included in the horae package in ubuntu) opens the file like a charm.

One additional detail (just in case), I have Ubuntu 16.04 LTS 64-bit.

Best, Juan

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I just checked a fix into github that addresses the problem Juan identified. Matt's assessment at https://github.com/bruceravel/demeter/issues/42 was exactly right. I adopted his second solution. Thanks to all of you for this discussion. B On 11/25/2016 05:23 AM, Juan de la figuera wrote:

Hi,

I send one of the data files we are currently acquiring (SPLINE beamline at ESRF).

I have checked that my compiled 0.9.24 version works with the examples cu10k.dat file, but it is true, as Robert confirmed, that strange things happen if you mark ev instead of kev.

With our data files like the one enclosed, dathena chokes on the scale. Actually it opens the window but it has x10^9 scale. On the other hand, the 0.9.24 for Windows opens the files ok. Now, the files are MSDOS-ended files, I tried converting them to Linux-ending, but same result. I also tried putting a # comment on the first line.

I stress that Athena 0.8.061 (included in the horae package in ubuntu) opens the file like a charm.

One additional detail (just in case), I have Ubuntu 16.04 LTS 64-bit.

Best, Juan

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-- Bruce Ravel ------------------------------------ bravel@bnl.gov National Institute of Standards and Technology Synchrotron Science Group at NSLS-II Building 743, Room 114 Upton NY, 11973 Homepage: http://bruceravel.github.io/home/ Software: https://github.com/bruceravel Demeter: http://bruceravel.github.io/demeter/