various update

turbox/__init__.py

@@ -2,6 +2,7 @@ from .turbox import (
     get_pspec,
     get_pspec_slope,
     build_turbox_data,
+    rho_pdf,
     apply_rule_pdf,
     span_resolution,
 )

turbox/turbox_params.yml

@@ -0,0 +1,85 @@
+plot : # Plot parameters
+    put_title : False                 # Add a title to plot
+
+    # Maps
+    ntick     : 6                     # Number of ticks for maps
+
+    # Overlays
+    vel_red   : 40                    # Take point each vel_red for velocities
+
+    tight_layout : False                 # Wheter to apply tight_layout
+    time_fmt     :  "{:.3g} {}"   # Time format string, 1st field is time and 2nd is unit
+
+rcParams: # Anything there will be passed to matplotlib's rcParams
+   {} # remove and replace by rcParams keys
+
+
+pymses: # Parameters for Pymses reader
+
+    # Source settings
+    variables :  ["rho","vel"]  # Read these grid variables
+    part_variables : []
+    check_variables : False
+    order     : '<'                                       # Bit order
+
+
+    # Processing options
+    levelmax : 20                      # Maximal AMR level visited when looking levels
+    fft      : False                   # Quick and dirty rendering using FFT
+    verbose  : False                    # Let pymses write on standart output
+    multiprocessing : True             # Whether to use multiprocessing
+
+    # Camera settings
+    center   :  [0.5, 0.5, 0.5]        # Center of the image
+    zoom     : 1.                      # Zoom  of the image
+    map_size : 256                     # Size of the computed maps in pixel
+
+    # Filter parameters
+    filter     : False                 # Enable filtering
+    min_coords : [0.35, 0.35, 0.45]
+    max_coords : [0.65, 0.65, 0.55]
+
+input: # Parameters on how to look for input files (= output from Ramses)
+
+    log_prefix     : "run.log"         # Prefix of the log file
+    label_filename : "label.txt"       # Name of the label file
+    nml_filename   : "run.nml"         # name of the namelist file
+    ramses_ism     : False              # If ramses-ism is used
+
+out: # Parameters for post processing
+    copy_info      : True                 # Copy logs, nml and info files to the outdir
+    tag            : ""                   # Tag for the image
+    interactive    : True                # Interactive mode (keep figures open)
+    save           : True                 # Save the plots on the disk
+    ext            : '.jpeg'              # extension for plots
+    ext_subfolder  : True                 # Separate production by extension in subfolders
+    fmt            : ""                   # Format of the output filename for plots
+    # The following keys are accepted
+    # {out} : The output directory (where hdf5  files are also stored)
+    # {run} : Name of the relevant run
+    # {num} : Name of the input file (from Ramses)
+    # {ext} : Extension defined above (with the dot)
+    # {name} : Name of the rule
+    # {subfolder} : replaced by /{ext[1:]}/ if ext_subfolder is true
+    # {tag} : Tag defined above
+    # {nml[nml_key]} : The value of nml_key in the namelist (ex: {nml[amr_params/levelmin]})
+
+
+process: # General setting of the post-processor module
+    verbose : True                     # Give more infos on what is going on
+    num_process : 10                   # Number of forks
+    save_cells : True                  # Save cells structure on disk
+    save_parts : True                  # Save particles on disk
+    unload_cells : True                # Save memory usage
+
+rules: # Specific rules parameters
+    turb_energy_threshold : -1       # Remove invalid data (<0 = no threshold)
+
+
+astrophysix: # Parameters for astrophysix and galactica
+    simu_fmt          : "{tag}_{run}"      # Format of the name of simulation
+    descr_fmt         : "{tag}_{run}"      # Format of the default description
+    # The following keys are accepted
+    # {run} : Name of the relevant run
+    # {tag} : Tag defined above
+    # {nml[nml_key]} : The value of nml_key in the namelist (ex: {nml[amr_params/levelmin]})