From 7b922d9d13a65ba09793dcea21b87ded9c5bdebd Mon Sep 17 00:00:00 2001 From: Andrew Chael Date: Mon, 24 Jun 2024 21:43:11 -0400 Subject: [PATCH] rebuilt docs --- _modules/ehtim/array.html | 7 +++-- _modules/ehtim/calibrating/network_cal.html | 4 +-- _modules/ehtim/calibrating/self_cal.html | 4 +-- _modules/ehtim/caltable.html | 23 +++++++++++----- _modules/ehtim/image.html | 29 +++++++++++++++------ _modules/ehtim/obsdata.html | 8 +++--- array.html | 2 +- image.html | 9 ++++--- searchindex.js | 2 +- 9 files changed, 57 insertions(+), 31 deletions(-) diff --git a/_modules/ehtim/array.html b/_modules/ehtim/array.html index 12adc79e..5bdfd002 100644 --- a/_modules/ehtim/array.html +++ b/_modules/ehtim/array.html @@ -277,12 +277,15 @@

Source code for ehtim.array

                matplotlib.axes
         """
         # sites
-        if sites in ['all' or 'All'] or sites == []:
+        if (isinstance(sites,str) and sites.lower() == 'all'):
             sites = list(self.tkey.keys())
 
-        if not isinstance(sites, list):
+        if isinstance(sites,str):
             sites = [sites]
 
+        if len(sites)==0:
+            sites = list(self.tkey.keys())
+                    
         keys = [self.tkey[site] for site in sites]
 
         axes = plot_tarr_dterms(self.tarr, keys=keys, label=label, legend=legend, clist=clist,
diff --git a/_modules/ehtim/calibrating/network_cal.html b/_modules/ehtim/calibrating/network_cal.html
index b4d4f4c2..94697c91 100644
--- a/_modules/ehtim/calibrating/network_cal.html
+++ b/_modules/ehtim/calibrating/network_cal.html
@@ -207,8 +207,8 @@ 
Source code for ehtim.calibrating.network_cal
zbl, sites, cluster_data, obs.polrep, pol,
                                                               method, pad_amp, gain_tol,
                                                               caltable, show_solution, debias, msgtype
-                                                             ] for i in range(len(scans))]),
-                                                             dtype=object)
+                                                             ] for i in range(len(scans))]))
+                                                             #dtype=object)
     else:  # without multiprocessing
         for i in range(len(scans)):
             obsh.prog_msg(i, len(scans), msgtype=msgtype, nscan_last=i - 1)
diff --git a/_modules/ehtim/calibrating/self_cal.html b/_modules/ehtim/calibrating/self_cal.html
index 17764c8b..077f4a41 100644
--- a/_modules/ehtim/calibrating/self_cal.html
+++ b/_modules/ehtim/calibrating/self_cal.html
@@ -244,8 +244,8 @@ 
Source code for ehtim.calibrating.self_cal
                                                               show_solution, pad_amp, gain_tol,
                                                               debias, caltable, msgtype,
                                                               use_grad
-                                                              ] for i in range(len(scans))]),
-                                                              dtype=object)
+                                                              ] for i in range(len(scans))]))
+                                                              #dtype=object)
 
     else:  # run on a single core
         for i in range(len(scans)):
diff --git a/_modules/ehtim/caltable.html b/_modules/ehtim/caltable.html
index 5611aa2c..3ae3e3ab 100644
--- a/_modules/ehtim/caltable.html
+++ b/_modules/ehtim/caltable.html
@@ -212,12 +212,15 @@ 
Source code for ehtim.caltable
                matplotlib.axes
         """
         # sites
-        if sites in ['all' or 'All'] or sites == []:
+        if (isinstance(sites,str) and sites.lower() == 'all'):
             sites = list(self.data.keys())
 
-        if not isinstance(sites, list):
+        if isinstance(sites,str):
             sites = [sites]
-
+            
+        if len(sites)==0:
+            sites = list(self.data.keys())
+                  
         keys = [self.tkey[site] for site in sites]
 
         axes = plot_tarr_dterms(self.tarr, keys=keys, label=label, legend=legend, clist=clist,
@@ -280,12 +283,15 @@ 
Source code for ehtim.caltable
             x = fig.add_subplot(1, 1, 1)
 
         # sites
-        if sites in ['all' or 'All'] or sites == []:
+        if (isinstance(sites,str) and sites.lower() == 'all'):
             sites = sorted(list(self.data.keys()))
 
-        if not isinstance(sites, list):
+        if isinstance(sites,str):
             sites = [sites]
 
+        if len(sites)==0:
+            sites = sorted(list(self.data.keys()))       
+
         if len(markersize) == 1:
             markersize = markersize * np.ones(len(sites))
 
@@ -1015,12 +1021,15 @@ 
Source code for ehtim.caltable
         caltab2 = caltab2.scan_avg(obs, incoherent=True)
 
     # sites
-    if sites in ['all' or 'All'] or sites == []:
+    if (isinstance(sites,str) and sites.lower() == 'all'):
         sites = list(set(caltab1.data.keys()).intersection(caltab2.data.keys()))
 
-    if not isinstance(sites, list):
+    if isinstance(sites,str):
         sites = [sites]
 
+    if len(sites)==0:
+        sites = list(set(caltab1.data.keys()).intersection(caltab2.data.keys()))
+        
     if site_name_dict is None:
         print('hi')
         site_name_dict = {}
diff --git a/_modules/ehtim/image.html b/_modules/ehtim/image.html
index 3da4037e..2fe1c657 100644
--- a/_modules/ehtim/image.html
+++ b/_modules/ehtim/image.html
@@ -3414,7 +3414,7 @@ 
Source code for ehtim.image
 
[docs]    def display(self, pol=None, cfun=False, interp='gaussian',
                 scale='lin', gamma=0.5, dynamic_range=1.e3,
                 plotp=False, plot_stokes=False, nvec=20,
-                vec_cfun=None,
+                vec_cfun=None,vec_cbar_lims=(),
                 scut=0, pcut=0.1, mcut=0.01, scale_ticks=False,
                 log_offset=False,
                 label_type='ticks', has_title=True, alpha=1,
@@ -3443,11 +3443,14 @@ 
Source code for ehtim.image
                plot_stokes (bool): True to plot stokes subplots along with plotp
                nvec (int): number of polarimetric vectors to plot
                vec_cfun (str): color function for vectors colored by lin pol frac
-
-               scut (float): minimum stokes I value for displaying spectral index
-               pcut (float): minimum stokes I value for displaying polarimetric vectors
-                             (fraction of maximum Stokes I)
+               vec_cbar_lims (tuple): lower and upper limit of the fractional polarization colormap
+               
+               scut (float): minimum fractional stokes I value for displaying spectral index
+               pcut (float): minimum fractional stokes I value for displaying polarimetric vectors
                mcut (float): minimum fractional polarization value for displaying vectors
+               scale_ticks (bool): if True, scale polarization ticks by linear polarization magnitude
+               
+               
                label_type (string): specifies the type of axes labeling: 'ticks', 'scale', 'none'
                has_title (bool): True if you want a title on the plot
                has_cbar (bool): True if you want a colorbar on the plot
@@ -3564,14 +3567,15 @@ 
Source code for ehtim.image
             else:
                 areaunit = 'beam'
                 beamarea = (2.0 * np.pi * beamparams[0] * beamparams[1] / (8.0 * np.log(2)))
-                factor = beamarea / (self.psize**2)
+                factor *= beamarea / (self.psize**2)
                 if power != 0:
                     areaunit = areaunit + (r' ($10^{{' + str(power) + '}}$ K)')
 
         else:
             raise ValueError('cbar_unit ' + cbar_unit[1] + ' is not a possible option')
 
-        if not plotp:  # Plot a single polarization image
+        # Plot a single polarization image
+        if not plotp:  
             cbar_lims_p = ()
 
             if pol.lower() == 'spec':
@@ -3719,7 +3723,8 @@ 
Source code for ehtim.image
                     cb.formatter.set_powerlimits((0, 0))
                     cb.update_ticks()
 
-        else:  # plot polarization with ticks!
+        # plot polarization with ticks!
+        else:  
 
             im_stokes = self.switch_polrep(polrep_out='stokes')
             imvec = np.array(im_stokes.imvec).reshape(-1) / (10**power)
@@ -3953,6 +3958,14 @@ 
Source code for ehtim.image
                            width=.007 * self.xdim, units='x', pivot='mid', angles='uv',
                            scale=1.1 / thin)
 
+                if not vec_cbar_lims:
+                    vec_cbar_lims = (0,1)
+                    
+                plt.clim(vec_cbar_lims[0],vec_cbar_lims[1])                
+                mcbar = plt.colorbar(pad=0.04,fraction=0.046, orientation="horizontal") 
+                mcbar.set_label(r'Fractional Linear Polarization $|m|$', fontsize=cbar_fontsize)
+                mcbar.ax.tick_params(labelsize=cbar_fontsize) 
+                            
             if not(beamparams is None or beamparams is False):
                 beamparams = [beamparams[0], beamparams[1], beamparams[2],
                               -.35 * self.fovx(), -.35 * self.fovy()]
diff --git a/_modules/ehtim/obsdata.html b/_modules/ehtim/obsdata.html
index 766b1bb8..e6bdaaa1 100644
--- a/_modules/ehtim/obsdata.html
+++ b/_modules/ehtim/obsdata.html
@@ -4809,7 +4809,7 @@ 
Source code for ehtim.obsdata
     for obs in obs_List:
         mjd_offset = obs.mjd - mjd_ref
         obs.data['time'] += mjd_offset * 24
-        if not(obs.scans is None or obs.scans == []):
+        if not(obs.scans is None or len(obs.scans)==0):
             obs.scans += mjd_offset * 24
 
     # merge the data
@@ -4818,14 +4818,14 @@ 
Source code for ehtim.obsdata
     # merge the scan list
     scan_merge = None
     for obs in obs_List:
-        if (obs.scans is None or obs.scans == []):
+        if (obs.scans is None or len(obs.scans)==0):
             continue
-        if (scan_merge is None or scan_merge == []):
+        if (scan_merge is None or len(scan_merge)==0):
             scan_merge = [obs.scans]
         else:
             scan_merge.append(obs.scans)
 
-    if not (scan_merge is None or scan_merge == []):
+    if not (scan_merge is None or len(scan_merge) == 0):
         scan_merge = np.vstack(scan_merge)
         _idxsort = np.argsort(scan_merge[:, 0])
         scan_merge = scan_merge[_idxsort]
diff --git a/array.html b/array.html
index df5f0e40..ea4b495c 100644
--- a/array.html
+++ b/array.html
@@ -120,7 +120,7 @@
 
 

 

-add_satellite_elements(satname, perigee_mjd=60419.930504360615, period_days=1.0, eccentricity=0.0, inclination=0.0, arg_perigee=0.0, long_ascending=0.0, sefd=10000)[source]

+add_satellite_elements(satname, perigee_mjd=60486.07153225953, period_days=1.0, eccentricity=0.0, inclination=0.0, arg_perigee=0.0, long_ascending=0.0, sefd=10000)[source]
 
Add an earth-orbiting satellite to the array from simple keplerian elements
 perfect keplerian orbit is assumed, no derivatives

 

diff --git a/image.html b/image.html
index 89a40e7b..9d81e0fc 100644
--- a/image.html
+++ b/image.html
@@ -758,7 +758,7 @@
 
 

 

-display(pol=None, cfun=False, interp='gaussian', scale='lin', gamma=0.5, dynamic_range=1000.0, plotp=False, plot_stokes=False, nvec=20, vec_cfun=None, scut=0, pcut=0.1, mcut=0.01, scale_ticks=False, log_offset=False, label_type='ticks', has_title=True, alpha=1, has_cbar=True, only_cbar=False, cbar_lims=(), cbar_unit='Jy', 'pixel', export_pdf='', pdf_pad_inches=0.0, show=True, beamparams=None, cbar_orientation='vertical', scinot=False, scale_lw=1, beam_lw=1, cbar_fontsize=12, axis=None, scale_fontsize=12, power=0, beamcolor='w', beampos='right', scalecolor='w', dpi=500)[source]

+display(pol=None, cfun=False, interp='gaussian', scale='lin', gamma=0.5, dynamic_range=1000.0, plotp=False, plot_stokes=False, nvec=20, vec_cfun=None, vec_cbar_lims=(), scut=0, pcut=0.1, mcut=0.01, scale_ticks=False, log_offset=False, label_type='ticks', has_title=True, alpha=1, has_cbar=True, only_cbar=False, cbar_lims=(), cbar_unit='Jy', 'pixel', export_pdf='', pdf_pad_inches=0.0, show=True, beamparams=None, cbar_orientation='vertical', scinot=False, scale_lw=1, beam_lw=1, cbar_fontsize=12, axis=None, scale_fontsize=12, power=0, beamcolor='w', beampos='right', scalecolor='w', dpi=500)[source]
 
Display the image.

 

 
Parameters

@@ -776,10 +776,11 @@
 
  • plot_stokes (bool) – True to plot stokes subplots along with plotp
    • 
 
  • nvec (int) – number of polarimetric vectors to plot
    • 
 
  • vec_cfun (str) – color function for vectors colored by lin pol frac
    • 
-
  • scut (float) – minimum stokes I value for displaying spectral index
    • 
-
  • pcut (float) – minimum stokes I value for displaying polarimetric vectors
-(fraction of maximum Stokes I)
    • 
+
  • vec_cbar_lims (tuple) – lower and upper limit of the fractional polarization colormap
    • 
+
  • scut (float) – minimum fractional stokes I value for displaying spectral index
    • 
+
  • pcut (float) – minimum fractional stokes I value for displaying polarimetric vectors
    • 
 
  • mcut (float) – minimum fractional polarization value for displaying vectors
    • 
+
  • scale_ticks (bool) – if True, scale polarization ticks by linear polarization magnitude
    • 
 
  • label_type (string) – specifies the type of axes labeling: ‘ticks’, ‘scale’, ‘none’
    • 
 
  • has_title (bool) – True if you want a title on the plot
    • 
 
  • has_cbar (bool) – True if you want a colorbar on the plot
    • 
diff --git a/searchindex.js b/searchindex.js
index f87540e6..33c94e39 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
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