diff --git a/AFM_thumbs/Config_AFM_thumbs.conf~ b/AFM_thumbs/Config_AFM_thumbs.conf~ deleted file mode 100755 index cf3617a..0000000 --- a/AFM_thumbs/Config_AFM_thumbs.conf~ +++ /dev/null @@ -1,166 +0,0 @@ -# -# -# This is the config file of the 'Advanced SCALA contact sheets' tool -# -# Don't make any changes -# - - -Last directory: /media/cle/Daten/Data/X -- 2012/rawdata/sample_Brice/NaCl_C60_01june2012p2 -PDF Path: - - -Parameters -========== -Rows : 6 -Columns : 4 -Rms : 1.3 -Image resolution : 100 -Jpeg quality : 40 -X text position : 0 -Y text position : 0 -Text size : 13 -Dx of text : 0 -Font : FreeSans -Date : 1 -Size in nm : 1 -Size in px : 1 -Offset : 1 -Voltage : 1 -Feedback : 1 -Gain : 1 -Speed : 1 -Amplitude : 1 -Angle : 1 -Deleting thumbs before : 0 -Deleting thumbs after : 0 -Extra directories : 0 -Replace pdfs : 1 -Subdirs : 1 -Spektral Options : 1 -Format Options : 0 -Peek Options : 0 -Minimum on zero Options: 0 -Master directory : -Filename : -Color : ReiGreen -File extension : _noline -Direction : 0 -Linefit : 3 -Planefit : 3 -AddChannel : 17 -ChannelNumber : 3 -Tooltips : 0 -Channelname 1 : FN -Channelname 2 : FL -Channelname 3 : I -Thumb 1 : 1 -Thumb 2 : 1 -Thumb 3 : 1 -Thumb 4 : 1 -Thumb 5 : 1 -Thumb 6 : 1 -Thumb 7 : 1 -Thumb 8 : 1 -Thumb 9 : 1 -Thumb 10 : 1 -Thumb 11 : 1 -Thumb 12 : 1 -Thumb 13 : 1 -Thumb 14 : 1 -Thumb 15 : 1 -Thumb 16 : 1 -Thumb 17 : 1 -Thumb 18 : 1 -Thumb 19 : 1 -Thumb 20 : 1 -Thumb 21 : 1 -Thumb 22 : 1 -LineFit 1 : 0 -LineFit 2 : 0 -LineFit 3 : 0 -LineFit 4 : 0 -LineFit 5 : 0 -LineFit 6 : 0 -LineFit 7 : 0 -LineFit 8 : 0 -LineFit 9 : 0 -LineFit 10 : 0 -LineFit 11 : 0 -LineFit 12 : 0 -LineFit 13 : 0 -LineFit 14 : 0 -LineFit 15 : 0 -LineFit 16 : 0 -LineFit 17 : 0 -LineFit 18 : 0 -LineFit 19 : 0 -LineFit 20 : 0 -LineFit 21 : 0 -LineFit 22 : 0 -PlaneFit 1 : 0 -PlaneFit 2 : 0 -PlaneFit 3 : 0 -PlaneFit 4 : 0 -PlaneFit 5 : 0 -PlaneFit 6 : 0 -PlaneFit 7 : 0 -PlaneFit 8 : 0 -PlaneFit 9 : 0 -PlaneFit 10 : 0 -PlaneFit 11 : 0 -PlaneFit 12 : 0 -PlaneFit 13 : 0 -PlaneFit 14 : 0 -PlaneFit 15 : 0 -PlaneFit 16 : 0 -PlaneFit 17 : 0 -PlaneFit 18 : 0 -PlaneFit 19 : 0 -PlaneFit 20 : 0 -PlaneFit 21 : 0 -PlaneFit 22 : 0 -Inverted 1 : 1 -Inverted 2 : 1 -Inverted 3 : 1 -Inverted 4 : 1 -Inverted 5 : 1 -Inverted 6 : 1 -Inverted 7 : 1 -Inverted 8 : 1 -Inverted 9 : 1 -Inverted 10 : 1 -Inverted 11 : 1 -Inverted 12 : 1 -Inverted 13 : 1 -Inverted 14 : 1 -Inverted 15 : 1 -Inverted 16 : 1 -Inverted 17 : 1 -Inverted 18 : 1 -Inverted 19 : 1 -Inverted 20 : 1 -Inverted 21 : 1 -Inverted 22 : 1 -Color 1 : BluePurple -Color 2 : PurpleBlue -Color 3 : Grey -Color 4 : Grey -Color 5 : PupleRed -Color 6 : RedPurple -Color 7 : Grey -Color 8 : Grey -Color 9 : OrangeRed -Color 10 : PurpleBlueGreen -Color 11 : Red -Color 12 : Red -Color 13 : Gnuplot -Color 14 : Gnuplot2 -Color 15 : ReiGreen -Color 16 : ReiGreen -Color 17 : Blue2 -Color 18 : Blue2 -Color 19 : Blue -Color 20 : Blue -Color 21 : Ocean -Color 22 : Ocean diff --git a/AFM_thumbs/Config_default.conf~ b/AFM_thumbs/Config_default.conf~ deleted file mode 100755 index f0036bf..0000000 --- a/AFM_thumbs/Config_default.conf~ +++ /dev/null @@ -1,166 +0,0 @@ -# -# -# This is the config file of the 'Advanced SCALA contact sheets' tool -# -# Don't make any changes -# - - -Last directory: /media/cle/Daten/Data/X -- 2016/rawdata/sample_Pd-HOPG/Ceria_10ML_Pd_annealed_Ethylene_2016-01-03 -PDF Path: /media/cle/Daten/Data/X -- 2016/rawdata/sample_Pd-HOPG/Ficken - - -Parameters -========== -Rows : 6 -Columns : 4 -Rms : 1.3 -Image resolution : 100 -Jpeg quality : 40 -X text position : 0 -Y text position : 0 -Text size : 13 -Dx of text : 0 -Font : Arial -Date : 1 -Size in nm : 1 -Size in px : 1 -Offset : 1 -Voltage : 1 -Feedback : 1 -Gain : 1 -Speed : 1 -Amplitude : 1 -Angle : 1 -Deleting thumbs before : 0 -Deleting thumbs after : 0 -Extra directories : 0 -Replace pdfs : 1 -Subdirs : 0 -Spektral Options : 1 -Format Options : 0 -Peek Options : 0 -Minimum on zero Options: 0 -Master directory : -Filename : -Color : ReiGreen -File extension : _noline -Direction : 0 -Linefit : 3 -Planefit : 3 -AddChannel : 17 -ChannelNumber : 3 -Tooltips : 0 -Channelname 1 : FN -Channelname 2 : FL -Channelname 3 : I -Thumb 1 : 1 -Thumb 2 : 1 -Thumb 3 : 1 -Thumb 4 : 1 -Thumb 5 : 1 -Thumb 6 : 1 -Thumb 7 : 1 -Thumb 8 : 1 -Thumb 9 : 1 -Thumb 10 : 1 -Thumb 11 : 1 -Thumb 12 : 1 -Thumb 13 : 1 -Thumb 14 : 1 -Thumb 15 : 1 -Thumb 16 : 1 -Thumb 17 : 1 -Thumb 18 : 1 -Thumb 19 : 1 -Thumb 20 : 1 -Thumb 21 : 1 -Thumb 22 : 1 -LineFit 1 : 0 -LineFit 2 : 0 -LineFit 3 : 0 -LineFit 4 : 0 -LineFit 5 : 0 -LineFit 6 : 0 -LineFit 7 : 0 -LineFit 8 : 0 -LineFit 9 : 0 -LineFit 10 : 0 -LineFit 11 : 0 -LineFit 12 : 0 -LineFit 13 : 0 -LineFit 14 : 0 -LineFit 15 : 0 -LineFit 16 : 0 -LineFit 17 : 0 -LineFit 18 : 0 -LineFit 19 : 0 -LineFit 20 : 0 -LineFit 21 : 0 -LineFit 22 : 0 -PlaneFit 1 : 1 -PlaneFit 2 : 1 -PlaneFit 3 : 0 -PlaneFit 4 : 0 -PlaneFit 5 : 0 -PlaneFit 6 : 0 -PlaneFit 7 : 0 -PlaneFit 8 : 0 -PlaneFit 9 : 0 -PlaneFit 10 : 0 -PlaneFit 11 : 0 -PlaneFit 12 : 0 -PlaneFit 13 : 1 -PlaneFit 14 : 1 -PlaneFit 15 : 0 -PlaneFit 16 : 0 -PlaneFit 17 : 0 -PlaneFit 18 : 0 -PlaneFit 19 : 0 -PlaneFit 20 : 0 -PlaneFit 21 : 0 -PlaneFit 22 : 0 -Inverted 1 : 0 -Inverted 2 : 0 -Inverted 3 : 1 -Inverted 4 : 1 -Inverted 5 : 0 -Inverted 6 : 0 -Inverted 7 : 0 -Inverted 8 : 0 -Inverted 9 : 0 -Inverted 10 : 0 -Inverted 11 : 0 -Inverted 12 : 0 -Inverted 13 : 1 -Inverted 14 : 1 -Inverted 15 : 0 -Inverted 16 : 0 -Inverted 17 : 0 -Inverted 18 : 0 -Inverted 19 : 0 -Inverted 20 : 0 -Inverted 21 : 0 -Inverted 22 : 0 -Color 1 : Gist_heat -Color 2 : Gist_heat -Color 3 : Grey -Color 4 : Grey -Color 5 : AFMhot -Color 6 : AFMhot -Color 7 : Grey -Color 8 : Grey -Color 9 : Grey -Color 10 : Grey -Color 11 : Red -Color 12 : Red -Color 13 : Blue2 -Color 14 : Blue2 -Color 15 : ReiGreen -Color 16 : ReiGreen -Color 17 : Blue2 -Color 18 : Blue2 -Color 19 : Blue -Color 20 : Blue -Color 21 : Ocean -Color 22 : Ocean diff --git a/AFM_thumbs/Variables.py~ b/AFM_thumbs/Variables.py~ deleted file mode 100755 index 216329f..0000000 --- a/AFM_thumbs/Variables.py~ +++ /dev/null @@ -1,568 +0,0 @@ -# ##### BEGIN GPL LICENSE BLOCK ##### -# -# This program is free software; you can redistribute it and/or -# modify it under the terms of the GNU General Public License -# as published by the Free Software Foundation; either version 2 -# of the License, or (at your option) any later version. -# -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU General Public License for more details. -# -# You should have received a copy of the GNU General Public License -# along with this program; if not, write to the Free Software Foundation, -# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. -# -# ##### END GPL LICENSE BLOCK ##### -# -# This is part of the python program 'AFM_thumbs'. Please, read the -# full licence text and other comments in the file 'AFM_thumbs.py' -# -# Dr. Clemens Barth (barth@root-1.de), project manager. -# -# DO NOT REMOVE THIS PREAMBLE !!! -# - - -# -# -# __________ Change the name and path of the config file ___________ from here -# -# -# -globvar_configfile = "Config_AFM_thumbs.conf" -globvar_configfile_path = "./AFM_thumbs/" - -""" -Example for Linux -globvar_configfile_path = "/home/user/bin/AFM_thumbs/" -globvar_configfile = "Config_AFM_thumbs.conf" - -Example for Windows -globvar_configfile_path = "C:\Users\Username\Desktop\AFmThumbnails\" \ - "AFM_thumbs" -globvar_configfile = "Config_AFM_thumbs.conf" -""" -# -# -# -# _____________________________________________________________________ to here -# -# -# - - - - - -# ____________________________________________________________ Global variables - -# DO NOT CHANGE ANYTHING BELOW, OTHERWISE YOU KNOW WHAT TO DO ! - -import time - -globvar_year = "2016-01-15" -globvar_version = "2.2" - -globvar_spaces = " " -globvar_name = "AFM thumbs v" + globvar_version -globvar_bar_title = (globvar_name + " " + - globvar_year) -globvar_note = ("Coordinated by:\n\nClemens Barth\n" + - "(barth@root-1.de)\n\n" + - " and\n\n" + - "Niklas Rethmann (nrethmann@uni-osnabrueck.de)\n\n"+ - globvar_year + "\n\n" - "www.root-1.de") -globvar_console = ("\n\n"+ - globvar_spaces + - globvar_name + - "" + - globvar_year + "\n" + - globvar_spaces + "www.root-1.de\n" + - globvar_spaces + "Date: " + - time.strftime("%d-%m-%Y") + - ", Time: " + - time.strftime("%H:%M:%S")) - -globvar_python_directory = "AFM_thumbs" -globvar_default_config = "Config_default.conf" - -globvar_thumb_size_x = 5.0 -globvar_thumb_size_y = 5.0 -globvar_thumb_text_width = 50 - -globvar_timepassed_1 = ("\n" + - globvar_spaces + - "Overall passed time: ") -globvar_timepassed_2 = "--- %d days --- %d hours --- %d minutes " + \ - "--- %0.3f seconds ---\n\n" - -# _______________________________________________________________ Omicron SCALA - -Omicron_SCALA_must_exist = ".par" -Omicron_SCALA_forward = ".tf" -Omicron_SCALA_backward = ".tb" - -# ____________________________________________________________ Nanotec DULCINEA - -Nanotec_DULCINEA_must_exist = ".f.top" -Nanotec_DULCINEA_forward = ".f." -Nanotec_DULCINEA_backward = ".b." -Nanotec_DULCINEA_suffix = ["f.top","f.ch4","f.ch5","f.ch6","f.ch7","f.ch8", - "b.top","b.ch4","b.ch5","b.ch6","b.ch7","b.ch8", - ".f.1st.Auxfeed", ".f.2nd.Auxfeed", - ".b.1st.Auxfeed", ".b.2nd.Auxfeed"] - -# _________________________________________________________________________ RHK - -RHK_must_exist = [".SM4", ".sm4"] -RHK_all_directions = ["all", "All", "ALL", "A", "a"] -RHK_forward_direction = ["forward", "Forward", "FORWARD", "for", - "For", "FOR", "f", "F"] -RHK_backward_direction = ["backward", "Backward", "BACKWARD", - "back", "Back", "BACK", "b", "B"] - - -RHK_message_direction = " --- Some RHK files could be detected! ---\n\n" \ - "Choose scan direction: (f)orward" \ - ", (b)ackward, (a)ll: " -# ____________________________________________________________________ Tooltips - -# Arrangement -TT_n_col = "Number of images in a column \n\n\ -This option lets you specific how \n\ -many images have to be in a column \n\n" - -TT_n_row = "Number of images in arow \n\n\ -This option lets you specific how \n\ -many images have to be in a row \n\n" - -TT_rms = "Contrast (times rms value) \n\n\ -This option lets you specific the \n\ -contrast of the images" - -TT_res = "Image resolution factor (in percent) \n\n\ -This option lets you specific the \n\ -resolution of the images" - -TT_qual = "Image quality \n\n\ -This option lets you specific the \n\ -quality of the images" - -# Position -TT_size = "Font size \n\n\ -This option lets you specific the \n\ -font size of the image text" - -TT_dx_pos = "dX position (in percent) \n\n\ -This option lets you shift the \n\ -image text left or right" - -TT_dy_pos = "dY position (in percent) \n\n\ -This option lets you shift the \n\ -image text up or down" - -TT_dw = "dWidth of text (in characters) \n\n\ -This option lets you specific the \n\ -width of the image text." - -# Specification -TT_file_ex = "This option lets you specific which \n\ -format should be considered" - -TT_master_dir = "This option lets you specific which \n\ -folders should be considered. \n\ -Should only be used together with the \"All sub-directories\" option" - -TT_filename = "This option lets you specific which \n\ -files should be considered." - -# Param -TT_date = "Include date and time \n\ -in the image text" - -TT_size_nm = "Include size in nanometer \n\ -in the image text" - -TT_size_px = "Include size in pixel \n\ -in the image text" - -TT_off = "Include offset in nanometer \n\ -in the image text" - -TT_vol = "Includes voltage (Volt) \n\ -in the image text" - -TT_feed = "Includes feedback\n\ -in the image text" - -TT_loop = "Includes loop gain\n\ -in the image text" - -TT_speed = "Include acquisition speed in s/line \n\ -in the image text" - -TT_amp = "Include amplitude\n\ -in the image text" - -TT_angle = "Include angle in degree \n\ -in the image text" - -# Other -TT_thumb_before = "Delete thumbs before all \n\n\ -With this option enabled, the thumbnail directory \n\ -will be deleted before a pdf thumbnail is created." - -TT_thumb_after = "Delete thumbs after all \n\n\ -With this option enabled, the thumbnail directory \n\ -will be deleted after a pdf thumbnail has been created." - -TT_extra_dir = "Extra directory \n\n\ -Creates extra WSxM and Gwyddion directories. \n\ -Two new directories are created in the directory one level above.\n\ -The directory structure(s) of the AFM data is(are) conserved." - -TT_pdfs = "Replace existing pdfs \n\n\ -Existing pdf files are replaced by new ones." - -TT_subdirs = "All sub-directories \n\n\ -All subdirectories of the selected directory (Button 'Choose directory')\n\ -are also considered. The respective pdf files are placed into the\n\ -directory one level above." - -TT_png = "Create images in png format \n\n\ -Change the image format of the thumbnails from jpeg to png." - -TT_spektral = " Include spectras \n\n\ -With this option images of spectra are included\n\ -into the pdf file." - -TT_peek = " Set color scale to peek-peek \n\n\ -This option permits setting the color scale of the \n\ -images to peek-to-peek values." - -TT_minimum_on_zero = " Set minimum value on zero \n\n\ -This option permits setting the minimum value of \n\ -the images onto zero." - -TT_Reich = "Reichling Special Options \n\n\ -This option triggers the following features: \n\ - - Colour for Kelvin images is set to gray \n\ - - One df image is inverted" - -# _____________________________________________________________________ For all - -ID_topography = r"[Tt]op(ograph(y|ie))?|TOP(OGRAPH(Y|IE))?|[Zz]" -ID_amplitude = r"[Aa]mplitude|AMPLITUDE|[Aa]mpl?\.?|AMPL?\.?" -ID_kelvin = r"[Kk]el(vin)?|KEL(VIN)?" -ID_kelvin_err = r"[Ee]rr(or)?|ERR(OR)?|[Ll]1[Xx]" -ID_df = r"[Dd][Ff]" -ID_df_fil = r"[Ff]iltered|FILTERED" -ID_dissipation = r"[Dd](issipation)?|DISSIPATION|[Dd]amp|DAMP|[Pp][Ll][Ll]" -ID_excitation = r"[Ee]xcitation|EXCITATION" -ID_ext1 = r"[Ee]xt(ernal)?( )?1|[Ee]XT(ERNALl)?( )?1" -ID_ext2 = r"[Ee]xt(ernal)?( )?2|[Ee]XT(ERNALl)?( )?2" -ID_phase = r"[Pp]ha(se)?|PHA(SE)?" - -ID_list = [ID_topography, ID_amplitude, ID_kelvin, ID_kelvin_err, ID_df, - ID_df_fil, ID_dissipation, ID_excitation, ID_ext1, ID_ext2, ID_phase] - -ID_abbreviations = {"Topography" : "Z", "filtered df":"df_fil", "Amplitude":"A", - "Dissipation": "D", "Kelvin Error": "KPFM_err", - "Ext 1": "Ext1", "Ext 2": "Ext2", "Excitation": "A_ext", - "Phase": "Phase", "Kelvin": "KPFM", "DF_DIG": "df", - "EXT": "Ext", "EXT1": "Ext1", "EXT2": "Ext2"} - -# ______________________________________________________________________ Colors - -# Colors: see http://matplotlib.org/examples/color/colormaps_reference.html -# Note that many other colours still exist, pre-defined! - -globvar_ttk_Combobox = 10 - -globvar_color_options = ["Grey", "Red", "Red2", "Blue", "Blue2", "Green", - "ReiGreen", "Yellow", "Gold", - "Orange", "Purples", - "BlueGreen", "GreenBlu", - "BluePurple", "PurpleBlue", "PupleRed", "RedPurple", - "OrangeRed", - "PurpleBlueGreen", - "Gnuplot", "Gnuplot2", "Ocean", "Rainbow", - "Gist_rainbow", "HSV", "Gist_stern", "Jet", - "Hot", "AFMhot", "Bone", "Gist_heat"] - -# This red is very nice and also ... -Color_Red = {'red': ((0.0, 0.0, 0.0), - (0.333, 0.6, 0.6), - (0.666, 1.0, 1.0), - (1.0, 1.0, 1.0)), - 'green': ((0.0, 0.0, 0.0), - (0.333, 0.0, 0.0), - (0.666, 0.0, 0.0), - (1.0, 1.0, 1.0)), - 'blue': ((0.0, 0.0, 0.0), - (0.333, 0.0, 0.0), - (0.666, 0.0, 0.0), - (1.0, 1.0, 1.0))} - -# ... this yellow, ... -Color_Yellow = {'red': ((0.0, 0.0, 0.0), - (0.333, 0.7, 0.7), - (0.666, 1.0, 1.0), - (1.0, 1.0, 1.0)), - 'green': ((0.0, 0.0, 0.0), - (0.333, 0.8, 0.8), - (0.666, 1.0, 1.0), - (1.0, 1.0, 1.0)), - 'blue': ((0.0, 0.0, 0.0), - (0.333, 0.0, 0.0), - (0.666, 0.0, 0.0), - (1.0, 1.0, 1.0))} - -# ... this blue, ... -Color_Blue = {'red': ((0.0, 0.0, 0.0), - (0.3, 0.0, 0.0), - (0.7, 0.9, 0.9), - (1.0, 1.0, 1.0)), - 'green': ((0.0, 0.0, 0.0), - (0.3, 0.0, 0.0), - (0.7, 0.9, 0.9), - (1.0, 1.0, 1.0)), - 'blue': ((0.0, 0.0, 0.0), - (0.7, 0.9, 0.9), - (1.0, 1.0, 1.0))} - -# ... gold and of course ... -Color_Gold = {'red': ((0.0, 0.0, 0.0), - (0.333, 0.545098039216, 0.545098039216), - (0.666, 0.803921568627, 0.803921568627), - (1.0, 1.0, 1.0)), - 'green': ((0.0, 0.0, 0.0), - (0.333, 0.458823529412, 0.458823529412), - (0.666, 0.678431372549, 0.678431372549), - (1.0, 1.0, 1.0)), - 'blue': ((0.0, 0.0, 0.0), - (0.333, 0.0, 0.0), - (0.666, 0.0, 0.0), - (1.0, 1.0, 1.0))} - -# ... the green colour from the Michael Reichling group. -Color_ReiGreen = {'red': ((0.0, 0.0, 0.0), - (0.381166, 0.0, 0.0), - (0.672646, 0.471014, 0.471014), - (1.0, 1.0, 1.0)), - 'green': ((0.0, 0.0, 0.0), - (0.381166, 0.381166, 0.381166), - (0.672646, 0.672646, 0.672646), - (1.0, 1.0, 1.0)), - 'blue': ((0.0, 0.0, 0.0), - (0.381166, 0.0, 0.0), - (0.672646, 0.0, 0.0), - (1.0, 1.0, 1.0))} - -Color_list = ["Greys_r", "Reds_r", Color_Red, "Blues_r", Color_Blue, "Greens_r", - Color_ReiGreen, Color_Yellow, Color_Gold, - "Oranges_r", "Purples_r", - "BuGn_r", "GnBu_r", - "BuPu_r", "PuBu_r", "PuRd_r", "RdPu_r", - "OrRd_r", - "PuBuGn_r", - "gnuplot", "gnuplot2", "ocean", "rainbow", - "gist_rainbow", "hsv", "gist_stern", "jet", - "hot", "afmhot", "bone", "gist_heat"] - -globvar_color_dict = {name:color for name, color in \ - zip(globvar_color_options, Color_list)} - -# ___________________________________________________________________ Fonts - -globvar_fonts = ['Courier', 'Courier New', 'Arial', 'FreeSans'] -# ___________________________________________________________________ Classes - -class CLASSparameters(object): - def __init__(self, row, col, rms, res, font, - thumbs_before, thumbs_after, peek, minimum_on_zero, - png, date, sizenm, - sizepx, offset, voltage, feedback, gain, - speed, ampl, text_block, text_block_height, - text_size, pdfs, text_x, text_y, angle, - extra_direct, extension, masterdir, filename, jpeg, - channel_names, thumbs, line_fit, plane_fit, invert, - colors, geometry_x, geometry_y, spektra): - self.row = row - self.col = col - self.rms = rms - self.res = res - self.font = font - self.thumbs_before = thumbs_before - self.thumbs_after = thumbs_after - self.peek = peek - self.minimum_on_zero = minimum_on_zero - self.png = png - self.date = date - self.sizenm = sizenm - self.sizepx = sizepx - self.offset = offset - self.voltage = voltage - self.feedback = feedback - self.gain = gain - self.speed = speed - self.ampl = ampl - self.text_block = text_block - self.text_block_height = text_block_height - self.text_size = text_size - self.pdfs = pdfs - self.text_x = text_x - self.text_y = text_y - self.angle = angle - self.extra_direct = extra_direct - self.extension = extension - self.masterdir = masterdir - self.filename = filename - self.jpeg = jpeg - self.channel_names = channel_names - self.thumbs = thumbs - self.line_fit = line_fit - self.plane_fit = plane_fit - self.invert = invert - self.colors = colors - self.geometry_x = geometry_x - self.geometry_y = geometry_y - self.spektra = spektra - -class CLASSdir(object): - def __init__(self, working_directory, pdf_path, - thumbnail_directory, data_directory_name): - self.working_directory = working_directory - self.pdf_path = pdf_path - self.thumbnail_directory = thumbnail_directory - self.data_directory_name = data_directory_name - - -class CLASSdata(object): - __slots__ = ('date', 'x_size', 'y_size', 'x_pixel', 'y_pixel', - 'x_off', 'y_off', - 'voltage', 'feedback', - 'gain', 'gain_prop', 'gain_int', 'gain_xy', - 'gain_signal', 'gain_z', - 'speed', 'amplitude', 'angle', 'NONE', - 'datfile', 'channel', 'unit', - 'z_average', 'z_calibration', 'z_factor', 'z_min', - 'z_max', 'z_amplitude', - 'scandir', 'spec_x_unit', 'spec_x_label', - 'spec_y_unit', 'spec_y_label', 'spec_y_factor', - 'spec_points', 'spec_feedback', 'spec_acquisition', - 'spec_delay') - def __init__(self, date, x_size, y_size, x_pixel, y_pixel, x_off, y_off, - voltage, feedback, - gain, gain_prop, gain_int, gain_xy, gain_signal, gain_z, - speed, amplitude, angle, NONE, - datfile, channel, unit, - z_average, z_calibration, z_factor, z_min, z_max, z_amplitude, - scandir, spec_x_unit, spec_x_label, - spec_y_unit, spec_y_label, spec_y_factor, - spec_points, spec_feedback, spec_acquisition, spec_delay): - self.date = date - self.x_size = x_size - self.y_size = y_size - self.x_pixel = x_pixel - self.y_pixel = y_pixel - self.x_off = x_off - self.y_off = y_off - self.voltage = voltage - self.feedback = feedback - self.gain = gain # SCALA - self.gain_prop = gain_prop # DULCINEA - self.gain_int = gain_int # DULCINEA - self.gain_xy = gain_xy # DULCINEA - self.gain_signal = gain_signal # DULCINEA - self.gain_z = gain_z # DULCINEA - self.speed = speed - self.amplitude = amplitude - self.angle = angle - self.NONE = NONE # This is a dummy ... - # From here to end: lists - self.datfile = datfile - self.channel = channel - self.unit = unit - self.z_average = z_average # float, is determined during runtime - self.z_calibration = z_calibration - self.z_factor = z_factor # DULCINEA, not used so far - self.z_amplitude = z_amplitude - self.z_min = z_min # DULCINEA, not used so far - self.z_max = z_max # DULCINEA, not used so far - self.scandir = scandir - self.spec_x_unit = spec_x_unit - self.spec_x_label = spec_x_label - self.spec_y_unit = spec_y_unit - self.spec_y_label = spec_y_label - self.spec_y_factor = spec_y_factor - self.spec_points = spec_points - self.spec_feedback = spec_feedback - self.spec_acquisition = spec_acquisition - self.spec_delay = spec_delay - - -class CLASSLinalg(object): - __slots__ = ('plane_M512', 'plane_M1024', - 'plane_x_vec512', 'plane_y_vec512', - 'plane_x_vec1024', 'plane_y_vec1024', - 'line_M512', 'line_M1024', - 'line_x_vec512', 'line_x_vec1024') - def __init__(self, plane_M512, plane_M1024, - plane_x_vec512, plane_y_vec512, - plane_x_vec1024, plane_y_vec1024, - line_M512, line_M1024, - line_x_vec512,line_x_vec1024): - self.plane_M512 = plane_M512 - self.plane_M1024 = plane_M1024 - self.plane_x_vec512 = plane_x_vec512 - self.plane_y_vec512 = plane_y_vec512 - self.plane_x_vec1024 = plane_x_vec1024 - self.plane_y_vec1024 = plane_y_vec1024 - self.line_M512 = line_M512 - self.line_M1024 = line_M1024 - self.line_x_vec512 = line_x_vec512 - self.line_x_vec1024 = line_x_vec1024 - - -# The next 2 classes are used specifically for the RHK routine. -class CLASSRHK_position_counter(object): - def __init__(self, position): - self.position = position - - def add(self): - self.position += 1 - -class CLASSRHK_direction_request(object): - def __init__(self, direction = all): - self.direction = direction - -class CLASSRHK_true(object): - def __init__(self, true = False): - self.true = true - - -globvar_LINALG = CLASSLinalg(None,None,None,None,None,None,None,None,None,None) - -globvar_AFMdata = CLASSdata(None,None,None,None,None,None,None,None,None,None, - None,None,None,None,None,None,None,None, None, - [],[],[], None, [],[],[],[],[],[],[], - [],[],[],[],[],[],[],[]) - -globvar_AFMdir = CLASSdir(None,None,None,None) - -globvar_ThumbPara = CLASSparameters(None, None, None, None, None, - False, False, False, False, False, False, - False, False, False, False, False, - False, False, False, - 0, 0, 0, False, 0, 0, False, - False, None, None, None, 0, - [], [], [], [], [], [], - [], [], None) - -# For RHK -RHK_PositionCounter = CLASSRHK_position_counter(None) -RHK_special = CLASSRHK_true(False)