May updates
This commit is contained in:
gac-furka
573
Run_table_update.py
Normal file
573
Run_table_update.py
Normal file
@ -0,0 +1,573 @@
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from sfdata import SFDataFiles
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from sfdata import SFScanInfo
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import pandas as pd
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import glob
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import datetime
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import warnings
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import io
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import os
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import time
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import numpy as np
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## You may need this !pip install lxml
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warnings.filterwarnings('ignore')
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def PVchs():
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pv_name_dict={"SATUN:FELPHOTENE":'FEL_en (keV)',
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"SATUN13-UIND030:POL-SET": 'Polarisation',
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"SATOP11-OSGM087:exitslit": 'Exit_slit (um)',
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"SATOP11-OSGM087:photonenergy": "Mono_en (eV)",
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"SATFE10-OGAT053:transmission": "Gas_trans",
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"SATFE10-PEPG046:PHOTON-ENERGY-PER-PULSE-AVG": "FEL_pulse_en (uJ)",
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"SATES30-ARES:MOT_2TRY.RBV": "diode_otr_tth (deg)",
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"SATES30-ARES:MOT_DRY.RBV": "diode_inr_tth (deg)",
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"SATES30-ARES:MOT_SRZ.RBV": "sample_chi (deg)",
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"SATES30-ARES:MOT_SRY.RBV": "sample_th (deg)",
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"SATES30-ARES:MOT_SRX.RBV": "sample_phi (deg)",
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"SATES30-ARES:MOT_STX.RBV": "sample_x (mm)",
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"SATES30-ARES:MOT_STY.RBV": "sample_y (mm)",
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"SATES30-ARES:MOT_STZ.RBV": "sample_z (mm)",
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"SATES30-LS336:C_RBV": "sample_temp (K)",
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"SATES30-LS336:A_RBV": "cryo_temp (K)",
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"SLAAT-LGEN:DLY_OFFS1": "LXT_off1 (us)",
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"SLAAT01-LTIM-PDLY:DELAY": "LXT_delay (ps)",
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"SLAAT01-LTIM-PDLY:DELAY_Z_OFFS": "LXT_off1 (ps)",
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"SLAAT31-LMOT-M801:MOT.RBV": "800_WP (deg)",
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"SLAAT31-LMOT-M802:MOT.RBV": "comp1",
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"SLAAT31-LMOT-M803:MOT.RBV": "comp2",
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"SLAAT31-LMOT-M804:MOT.RBV": "comp3",
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"SLAAT31-LMOT-M805:MOT.RBV": "comp4",
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"SLAAT31-LMOT-M806:MOT.RBV": "EOS_delay (mm)",
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"SLAAT31-LMOT-M807:MOT.RBV": "WL_delay (mm)",
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"SLAAT31-LMOT-M808:MOT.RBV": "800_delay (mm)",
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}
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return pv_name_dict
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def colors():
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dict_colors = {
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'yellow_light' : ('#BF8F00', '2px solid #BF8F00', '#FFF2CC', '#FFFFFF'),
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'grey_light' : ('#808080', '2px solid #808080', '#EDEDED', '#FFFFFF'),
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'blue_light' : ('#305496', '2px solid #305496', '#D9E1F2', '#FFFFFF'),
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'orange_light' : ('#C65911', '2px solid #C65911', '#FCE4D6', '#FFFFFF'),
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'green_light' : ('#548235', '2px solid #548235', '#E2EFDA', '#FFFFFF'),
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'red_light' : ('#823535', '2px solid #823535', '#efdada', '#FFFFFF'),
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'yellow_dark' : ('#FFFFFF', '2px solid #BF8F00', '#FFF2CC', '#BF8F00'),
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'grey_dark' : ('#FFFFFF', '2px solid #808080', '#EDEDED', '#808080'),
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'blue_dark': ('#FFFFFF', '2px solid #305496', '#D9E1F2', '#305496'),
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'blue_yellow': ('#FFFFFF', '2px solid #305496', '#ecedbe', '#305496'),
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'orange_dark' : ('#FFFFFF', '2px solid #C65911', '#FCE4D6', '#C65911'),
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'green_dark' : ('#FFFFFF', '2px solid #548235', '#E2EFDA', '#548235'),
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'red_dark' : ('#FFFFFF', '2px solid #823535', '#efdada', '#823535')
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}
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return (dict_colors)
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def build_table_nocondition(
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df,
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color,
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font_size='12px',
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font_family='Century Gothic, sans-serif',
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text_align='center',
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width='600px',
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index=False,
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even_color='black',
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even_bg_color='white',
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odd_bg_color=None,
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border_bottom_color=None,
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escape=True,
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width_dict=[],
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padding="10px 10px 3px 3px",
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float_format=None):
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dict_colors = colors()
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if df.empty:
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return ''
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# Set color
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color, border_bottom, odd_background_color, header_background_color = dict_colors[color]
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if odd_bg_color:
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odd_background_color = odd_bg_color
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if border_bottom_color:
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border_bottom = border_bottom_color
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a = 0
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while a != len(df):
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if a == 0:
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df_html_output = df.iloc[[a]].to_html(
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na_rep="",
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index=index,
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border=0,
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escape=escape,
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float_format=float_format,
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)
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# change format of header
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if index:
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + header_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';color: ' + color
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+ ';text-align: ' + text_align
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+ ';border-bottom: ' + border_bottom
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">', len(df.columns)+1)
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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else:
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + header_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';color: ' + color
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+ ';text-align: ' + text_align
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+ ';border-bottom: ' + border_bottom
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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#change format of table
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df_html_output = df_html_output.replace('<td>'
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,'<td style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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body = """<p>""" + format(df_html_output)
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a = 1
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elif a % 2 == 0:
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df_html_output = df.iloc[[a]].to_html(na_rep = "", index = index, header = False, escape=escape)
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# change format of index
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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#change format of table
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df_html_output = df_html_output.replace('<td>'
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,'<td style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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body = body + format(df_html_output)
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a += 1
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elif a % 2 != 0:
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df_html_output = df.iloc[[a]].to_html(na_rep = "", index = index, header = False, escape=escape)
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# change format of index
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + even_bg_color
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+ '; color: ' + even_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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#change format of table
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df_html_output = df_html_output.replace('<td>'
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,'<td style = "background-color: ' + even_bg_color
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+ '; color: ' + even_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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body = body + format(df_html_output)
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a += 1
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body = body + """</p>"""
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body = body.replace("""</td>
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</tr>
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</tbody>
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</table>
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<table border="1" class="dataframe">
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<tbody>
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<tr>""","""</td>
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</tr>
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<tr>""").replace("""</td>
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</tr>
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</tbody>
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</table><table border="1" class="dataframe">
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<tbody>
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<tr>""","""</td>
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</tr>
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<tr>""")
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if len(width_dict) == len(df.columns):
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width_body = ''
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w = 0
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for line in io.StringIO(body):
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line = line.replace("\n", "")
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width_body = width_body + repr(line).replace("width: auto", 'width: ' + width_dict[w])[1:]
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if str(repr(line))[:10] == "' <td" or str(repr(line))[:10] == "' <th" :
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if w == len(df.columns) -1:
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w = 0
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else:
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w += 1
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return width_body[:len(width_body)-1].replace("'", "")
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else:
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return body.replace(r"\n'", "")
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def build_table(
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df,
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color,
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font_size='12px',
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font_family='Century Gothic, sans-serif',
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text_align='center',
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width='600px',
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index=False,
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even_color='black',
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even_bg_color='white',
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odd_bg_color=None,
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border_bottom_color=None,
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escape=True,
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width_dict=[],
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padding="10px 10px 3px 3px",
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float_format=None,
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conditions={}):
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dict_colors = colors()
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if df.empty:
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return ''
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# Set color
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color, border_bottom, odd_background_color, header_background_color = dict_colors[color]
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if odd_bg_color:
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odd_background_color = odd_bg_color
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if border_bottom_color:
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border_bottom = border_bottom_color
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a = 0
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while a != len(df):
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if a == 0:
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df_html_output = df.iloc[[a]].to_html(
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na_rep="",
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index=index,
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border=0,
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escape=escape,
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float_format=float_format,
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)
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# change format of header
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if index:
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + header_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';color: ' + color
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+ ';text-align: ' + text_align
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+ ';border-bottom: ' + border_bottom
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">', len(df.columns)+1)
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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else:
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + header_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';color: ' + color
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+ ';text-align: ' + text_align
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+ ';border-bottom: ' + border_bottom
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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#change format of table
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df_html_output = df_html_output.replace('<td>'
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,'<td style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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body = """<p>""" + format(df_html_output)
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a = 1
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elif a % 2 == 0:
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df_html_output = df.iloc[[a]].to_html(na_rep = "", index = index, header = False, escape=escape)
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# change format of index
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df_html_output = df_html_output.replace('<th>'
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,'<th style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
|
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+ ';text-align: ' + text_align
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
|
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|
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#change format of table
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df_html_output = df_html_output.replace('<td>'
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,'<td style = "background-color: ' + odd_background_color
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+ ';font-family: ' + font_family
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+ ';font-size: ' + str(font_size)
|
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+ ';text-align: ' + text_align
|
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+ ';padding: ' + padding
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+ ';width: ' + str(width) + '">')
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body = body + format(df_html_output)
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a += 1
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elif a % 2 != 0:
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df_html_output = df.iloc[[a]].to_html(na_rep = "", index = index, header = False, escape=escape)
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# change format of index
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df_html_output = df_html_output.replace('<th>'
|
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,'<th style = "background-color: ' + even_bg_color
|
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+ '; color: ' + even_color
|
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+ ';font-family: ' + font_family
|
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+ ';font-size: ' + str(font_size)
|
||||
+ ';text-align: ' + text_align
|
||||
+ ';padding: ' + padding
|
||||
+ ';width: ' + str(width) + '">')
|
||||
|
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#change format of table
|
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df_html_output = df_html_output.replace('<td>'
|
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,'<td style = "background-color: ' + even_bg_color
|
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+ '; color: ' + even_color
|
||||
+ ';font-family: ' + font_family
|
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+ ';font-size: ' + str(font_size)
|
||||
+ ';text-align: ' + text_align
|
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+ ';padding: ' + padding
|
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+ ';width: ' + str(width) + '">')
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body = body + format(df_html_output)
|
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a += 1
|
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|
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body = body + """</p>"""
|
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|
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body = body.replace("""</td>
|
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</tr>
|
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</tbody>
|
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</table>
|
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<table border="1" class="dataframe">
|
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<tbody>
|
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<tr>""","""</td>
|
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</tr>
|
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<tr>""").replace("""</td>
|
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</tr>
|
||||
</tbody>
|
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</table><table border="1" class="dataframe">
|
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<tbody>
|
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<tr>""","""</td>
|
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</tr>
|
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<tr>""")
|
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|
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if conditions:
|
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for k in conditions.keys():
|
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try:
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conditions[k]['index'] = list(df.columns).index(k)
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width_body = ''
|
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w = 0
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for line in io.StringIO(body):
|
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updated_body = False
|
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if w == conditions[k]['index']:
|
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try:
|
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if float(repr(line).split('>')[1].split('<')[0]) < conditions[k]['min']:
|
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if 'color: black' in repr(line):
|
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width_body = width_body + repr(line).replace("color: black", 'color: ' + conditions[k]['min_color'])[1:]
|
||||
elif 'color: white' in repr(line):
|
||||
width_body = width_body + repr(line).replace("color: white", 'color: ' + conditions[k]['min_color'])[1:]
|
||||
else:
|
||||
width_body = width_body + repr(line).replace('">', '; color: ' + conditions[k]['min_color'] + '">')[1:]
|
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updated_body = True
|
||||
elif float(repr(line).split('>')[1].split('<')[0]) > conditions[k]['max']:
|
||||
if 'color: black' in repr(line):
|
||||
width_body = width_body + repr(line).replace("color: black", 'color: ' + conditions[k]['max_color'])[1:]
|
||||
elif 'color: white' in repr(line):
|
||||
width_body = width_body + repr(line).replace("color: white", 'color: ' + conditions[k]['max_color'])[1:]
|
||||
else:
|
||||
width_body = width_body + repr(line).replace('">', '; color: ' + conditions[k]['max_color'] + '">')[1:]
|
||||
updated_body = True
|
||||
except:
|
||||
pass
|
||||
if not updated_body:
|
||||
width_body = width_body + repr(line)[1:]
|
||||
|
||||
if str(repr(line))[:10] == "' <td" or str(repr(line))[:10] == "' <th":
|
||||
if w == len(df.columns) -1:
|
||||
w = 0
|
||||
else:
|
||||
w += 1
|
||||
body = width_body[:len(width_body)-1]
|
||||
except:
|
||||
pass
|
||||
|
||||
if len(width_dict) == len(df.columns):
|
||||
width_body = ''
|
||||
w = 0
|
||||
if conditions:
|
||||
for line in body.split(r"\n'"):
|
||||
width_body = width_body + repr(line).replace("width: auto", 'width: ' + width_dict[w])[1:]
|
||||
if str(repr(line))[:10] == "' <td" or str(repr(line))[:10] == "' <th" :
|
||||
if w == len(df.columns) -1:
|
||||
w = 0
|
||||
else:
|
||||
w += 1
|
||||
else:
|
||||
for line in io.StringIO(body):
|
||||
line = line.replace("\n", "")
|
||||
width_body = width_body + repr(line).replace("width: auto", 'width: ' + width_dict[w])[1:]
|
||||
if str(repr(line))[:10] == "' <td" or str(repr(line))[:10] == "' <th" :
|
||||
if w == len(df.columns) -1:
|
||||
w = 0
|
||||
else:
|
||||
w += 1
|
||||
return width_body[:len(width_body)-1].replace("'", "")
|
||||
else:
|
||||
return body.replace(r"\n'", "")
|
||||
|
||||
def get_filename(run,dir_raw):
|
||||
file_list=glob.glob(dir_raw+f'run{str(run).zfill(4)}*')
|
||||
if len(file_list)!=1:
|
||||
print(f'No/duplicate file name for {run}')
|
||||
return False
|
||||
else:
|
||||
filename=file_list[0]
|
||||
return filename
|
||||
|
||||
def get_latest_run(dir_raw):
|
||||
with open(dir_raw+'run_info/LAST_RUN') as f:
|
||||
return int(f.readlines()[0])
|
||||
|
||||
def get_scan_info_dict(dir_raw,run):
|
||||
scan_SFSI=SFScanInfo(get_filename(run,dir_raw)+"/meta/scan.json")
|
||||
scan_SFDF=SFDataFiles(get_filename(run,dir_raw)+"/data/*.PVDATA.h5")
|
||||
pv_name_dict = PVchs()
|
||||
pv_info_dict = {k+' '+pv_name_dict[k]: np.round(v.data[0],6) if isinstance(v.data[0], float) else v.data[0] for k,v in scan_SFDF.items()}
|
||||
scan_info_dict={'Run':run,
|
||||
'date':scan_SFSI.fs.atime.strftime("%d/%m/%Y"),
|
||||
'time':scan_SFSI.fs.atime.strftime("%H:%M:%S"),
|
||||
'duration':f'{str(scan_SFSI.fs.mtime-scan_SFSI.fs.atime)[:-7:]}',
|
||||
'scan_name':scan_SFSI.parameters['scan_name'],
|
||||
'scanned':scan_SFSI.parameters['name'][0],
|
||||
'start':scan_SFSI.readbacks[0],
|
||||
'end':scan_SFSI.readbacks[-1]}
|
||||
if len(scan_SFSI.readbacks)!=1:
|
||||
scan_info_dict['step']=np.abs(np.diff(scan_SFSI.readbacks)[0])
|
||||
elif len(scan_SFSI.readbacks)==1:
|
||||
scan_info_dict['step']=0
|
||||
scan_info_dict['steps']=len(scan_SFSI.readbacks)
|
||||
scan_info_dict['shots']=len(scan_SFSI[0].all_pids)
|
||||
scan_info_dict['scanned_ID']=scan_SFSI.parameters['Id'][0]
|
||||
try:
|
||||
scan_info_dict['units']=scan_SFSI.parameters['units'][0]
|
||||
except KeyError:
|
||||
scan_info_dict['units']='au'
|
||||
scan_info_dict.update(pv_info_dict)
|
||||
scanned_id=scan_info_dict['scanned_ID']
|
||||
if scanned_id=='ATHOS_Mon_Und':
|
||||
scan_info_dict['SATUN:FELPHOTENE FEL_en (keV)']='scanned'
|
||||
scan_info_dict['SATOP11-OSGM087:photonenergy Mono_en (eV)']='scanned'
|
||||
elif scanned_id=='SLAAT01-LTIM-PDLY:DELAY':
|
||||
scan_info_dict["SLAAT01-LTIM-PDLY:DELAY LXT_delay (ps)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_STZ.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_STZ.RBV sample_z (mm)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_STY.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_STY.RBV sample_y (mm)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_STX.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_STX.RBV sample_x (mm)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_SRX.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_SRX.RBV sample_phi (deg)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_SRY.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_SRY.RBV sample_th (deg)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_SRZ.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_SRZ.RBV sample_chi (deg)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_DRY.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_DRY.RBV diode_inr_tth (deg)"]='scanned'
|
||||
elif scanned_id=='SATES30-ARES:MOT_2TRY.VAL':
|
||||
scan_info_dict["SATES30-ARES:MOT_2TRY.RBV diode_otr_tth (deg)"]='scanned'
|
||||
else:
|
||||
matching_keys=[k for k in pv_name_dict.keys() if k.startswith(scanned_id)]
|
||||
if len(matching_keys)==1:
|
||||
scan_info_dict[matching_keys[0]+' '+pv_name_dict[matching_keys[0]]]='scanned'
|
||||
else:
|
||||
xyz=2
|
||||
# print(f'Channel naming inconsistency in {run}')
|
||||
# print(scanned_id)
|
||||
# print(matching_keys)
|
||||
return scan_info_dict
|
||||
|
||||
def make_run_table(dir_raw,path,runs,htmlfilename='Few_runs_run_table',color_scheme='blue_yellow'):
|
||||
if os.path.exists(path+htmlfilename+'.html'):
|
||||
info_df = pd.read_html(path+htmlfilename+'.html', header=0, index_col=None)[0]
|
||||
else:
|
||||
info_df = pd.DataFrame(columns=['Run'])
|
||||
for run in runs:
|
||||
if run not in info_df['Run'].values:
|
||||
if get_filename(run,dir_raw) is not False:
|
||||
new_row = pd.DataFrame([get_scan_info_dict(dir_raw,run)])
|
||||
info_df = pd.concat([info_df, new_row], ignore_index=True, sort=False)
|
||||
info_df = info_df.sort_values('Run')
|
||||
# conditions={'SATES30-LS336:C_RBV sample_temp (K)': {'min': 40,'max': 60, 'min_color': 'red','max_color': 'green'},
|
||||
# }
|
||||
|
||||
# html_table = build_table(info_df, color_scheme,conditions=conditions)
|
||||
html_table = build_table_nocondition(info_df, color_scheme)
|
||||
with open(path+htmlfilename+'.html', 'w') as f:
|
||||
f.write(path+html_table)
|
||||
|
||||
def make_run_table_live(dir_raw,path,check_interval=5,keep_running_for=4,htmlfilename='updating_run_table',color_scheme='blue_yellow'):
|
||||
run_last = 0
|
||||
time_last_change = time.time()
|
||||
while True:
|
||||
if run_last != get_latest_run(dir_raw):
|
||||
run_last = get_latest_run(dir_raw)
|
||||
time_last_change = time.time()
|
||||
if os.path.exists(path+htmlfilename+'.html'):
|
||||
info_df=pd.read_html(path+htmlfilename+'.html',header=0, index_col=None)[0]
|
||||
else:
|
||||
info_df=pd.DataFrame(columns=['Run'])
|
||||
for run in range(run_last + 1):
|
||||
if run in info_df['Run'].values:
|
||||
continue
|
||||
filename = get_filename(run, dir_raw)
|
||||
if filename == False:
|
||||
continue
|
||||
new_row = pd.DataFrame([get_scan_info_dict(dir_raw,run)])
|
||||
info_df = pd.concat([info_df, new_row], ignore_index=True, sort=False)
|
||||
info_df = info_df.sort_values('Run')
|
||||
# html_table = build_table(info_df, color_scheme)
|
||||
html_table = build_table_nocondition(info_df, color_scheme)
|
||||
with open(path+htmlfilename+'.html', 'w') as f:
|
||||
f.write(html_table)
|
||||
if time.time() - time_last_change > keep_running_for*60*60:
|
||||
print('Not running any more.')
|
||||
break
|
||||
print('Waiting to check.')
|
||||
time.sleep(check_interval*60)
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
Reference in New Issue
Block a user