add collider-relevant reduced diags (#4024)

* added collider reduced diags

* added test

* fixed xy_ave and xy_std

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* fixed usage of IntVect and removed print

* Set up automated CI test

To-do:
- Fix bug (erroneous arithmetic operation)
- Remove unused parameters from input file

* Fix warning: set mass only if WARPX_QED

* Use amrex::ParticleReal for mass

* Update Make.package to fix GNU Make build

* reduced_data.value() only once

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Merge `development` into `coll_rel_red_diags`

* updated 3d beam test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* updated 3d test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* `m_write_header` instead of `m_IsNotRestart`

* added angles

* updated 3d beam test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* added 3 particle test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* added warning

* updated diags names

* updated analysis multiple particles

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* added positrons to test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Update CI test

* Reuse input file parser from Tools

* Apply suggestions from code review

* Apply suggestions from code review

* changed order of diags and added docs

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Apply WarpX style conventions

* Fix CodeQL alerts

* assert in RZ and removed fine ref levs

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Fix compilation in 2D

* Fix compilation in RZ

* Update Docs/source/usage/parameters.rst

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.cpp

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.cpp

Co-authored-by: Luca Fedeli <luca.fedeli.88@gmail.com>

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.cpp

Co-authored-by: Luca Fedeli <luca.fedeli.88@gmail.com>

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.H

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.H

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* minimized number of kernel launches and parallel ops

* updated constructor of ReduceDiags

* fixed based on comments

* updated docs: if QED not enable

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* fixed ReducedDiags constructor

* two passes instead of one for robusteness

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* fixed bugs

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Fix 1D build (typo `wtot` instead of `w_tot`)

* refixed compile in RZ

* check io process in chi_ave computation

* updated test

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Temporary fix: remove IOProcessor

* Update Source/Diagnostics/ReducedDiags/ColliderRelevant.cpp

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* Apply suggestions from code review

* Remove `Debug` compilation mode from CI test

* CI test analysis: check all particles have same charge

* Use `m_beam_name` instead of `species_names`

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: Luca Fedeli <luca.fedeli.88@gmail.com>

1 files changed, 32 insertions, 0 deletions

diff --git a/Tools/Parser/input_file_parser.py b/Tools/Parser/input_file_parser.py
new file mode 100644
index 000000000..0ab134f62
--- /dev/null
+++ b/Tools/Parser/input_file_parser.py
@@ -0,0 +1,32 @@
+def parse_input_file(input_file):
+    """
+    Parse WarpX input file.
+
+    Parameters
+    ----------
+    input_file : string
+        Path to input file.
+
+    Returns
+    -------
+    input_dict : dictionary
+        Dictionary storing WarpX input parameters
+        (parameter's name stored as key, parameter's value stored as value).
+    """
+    input_dict = dict()
+    with open(input_file) as ff:
+        for line in ff:
+            sline = line.split('=')
+            # skip lines that are commented out, blank, or continuation of previous parameters
+            skip_line = sline[0].startswith('#') or sline[0].startswith('\n') or len(sline) == 1
+            if not skip_line:
+                key = sline[0].strip()
+                val = sline[1].split()
+                # The value corresponding to a given key of input_dict is a list
+                # of strings, from which we remove any leftover comments
+                for i in range(len(val)):
+                    if val[i].startswith('#'):
+                        val = val[:i]
+                        break
+                input_dict[key] = val
+    return input_dict