PHASTA/Reduce Restart and Geombc Files - Revision history

Jeffhadley: /* M2N_input.dat */

2023-10-31T16:51:03Z

‎M2N_input.dat

Jrwrigh: Jrwrigh moved page Reduce Restart and Geombc Files to PHASTA/Reduce Restart and Geombc Files: Move to a subpage organization

2022-09-18T17:52:37Z

Jrwrigh moved page Reduce Restart and Geombc Files to PHASTA/Reduce Restart and Geombc Files: Move to a subpage organization

Jrwrigh at 22:52, 13 July 2020

2020-07-13T22:52:25Z

Jrwrigh: Formatting changes

2020-03-15T01:48:25Z

Formatting changes

Kjansen: /* Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel, phParAdapt-SCOREC or chef */

2015-06-11T00:43:43Z

‎Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel, phParAdapt-SCOREC or chef

Kjansen: /* Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel */

2015-06-11T00:42:01Z

‎Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel

Mrasquin at 22:47, 8 November 2013

2013-11-08T22:47:12Z

Mrasquin at 20:33, 29 August 2013

2013-08-29T20:33:53Z

Mrasquin at 20:28, 29 August 2013

2013-08-29T20:28:09Z

Mrasquin at 20:26, 29 August 2013

2013-08-29T20:26:53Z

@@ Line 50: / Line 50: @@
 The "M2N_input.dat" must include the following information:
-# time step of the restart files for solution, dwal, error and ybar.  It can be very useful when processing many files on queued systems to
+# time step of the restart files for fields to reduce (solution, ybar, etc)
-          # replace this number (120)  by Step2Red and then use sed in the submit script to replace it with a number entered on the command line
+# time step of the restart files for partID and vtxID (mapping between M and N)
-          # e.g., Step2Red=$4
+# Reduce the ybar field? (0/1)
-          #         sed "s/Step2Red/${Step2Red}/g" M2N_inputSed.dat > M2N_input.dat
+# Reduce the error field? (0/1)
-          # for easy replacement just ahead of execution and $4 is the 4th argument on the submit script passed to the run script with this insertion
+# Reduce the phase_average field? (0/n phase average fields)
-# time step of the restart files for partID and vtxID (mapping between M and N)
+# Reduce the vorticity field? (0/1)
-   # Reduce method: 0 = communicatoin based approach (recommended), 1 = file based approach.
+# Reduce the dwal? (0/1)
-   # (For reduce method = 1 only): 0 = ascii files, 1 = binary files
+# Print debug statement (0/1)
-   # Print debug statement if = 1, none if = 0 (recommended at scale)
 === M2NFixBnd ===

← Older revision		Revision as of 22:52, 13 July 2020
Line 93:		Line 93:
	*The reduce operation will generate restart.##.0 in the procs_case directory, where ## stands for the step number you have reduced.		*The reduce operation will generate restart.##.0 in the procs_case directory, where ## stands for the step number you have reduced.
	*restart.##.0, combined with geombc.dat.1 (which contains the boundary conditions for all the parts - it is created when you run NSPre_Parasolid), are what you need to see the solution on 1 part.		*restart.##.0, combined with geombc.dat.1 (which contains the boundary conditions for all the parts - it is created when you run NSPre_Parasolid), are what you need to see the solution on 1 part.
		+
		+	[[Category:PHASTA]]

@@ Line 1: / Line 1: @@
-== Reduction from M parts to 1 part in serial for phasta files initially partitioned with NSpre_parallel ==
+== Reduction from M to N parts in parallel for PHASTA files initially partitioned with NSpre_parallel, phParAdapt-SCOREC or chef ==
-* Prerequisites:
+=== Prerequisites ===
 The tool described in this section apply to phasta files initially partitioned with phParAdapt-SCOREC or chef. We consider here that M parts were generated from N parts with M>N (M is usually a multiple of N). A vertex mapping between the M parts and N parts needs to be generated by phParAdapt-SCOREC or chef through the variable "buildMapping 1" in adapt.inp.
 * Download the M2N and M2NFixBdn packages from
    cd your-develop-dir-cmake/phasta
@@ Line 35: / Line 26: @@
    cd ..
-* Run M2N on M processes
+=== M2N ===
    mpirun -np M  your-develop-dir-cmake/build-M2N/M2N
-Input: M2N reads
+==== M2N Inputs ====
-  - The geombc files files under the SyncIO format (M parts);
+M2N reads:
-  - The solution, dwal, error and ybar fields from a set of restart files under the SyncIO format (M parts) for adaptation or post-processing later;
+* The geombc files files under the SyncIO format (M parts);
-  - The vertex mapping field from a set of restart files under the SyncIO format (M parts).
+* The solution, dwal, error and ybar fields from a set of restart files under the SyncIO format (M parts) for adaptation or post-processing later;
-  - An input file named "M2N_input.dat" described below
+* The vertex mapping field from a set of restart files under the SyncIO format (M parts).
 Note that usually, the vertex mapping field is included in the restart files of the first time step of your computation, whereas the solution, dwal, error and dwal come from the last time step of the computation.
@@ Line 57: / Line 60: @@
     # Print debug statement if = 1, none if = 0 (recommended at scale)
-Output: M2N produces
+=== M2NFixBnd ===
-  - N restart files under the Posix format, which is what phParAdapt requires for now.
+The value of the solution, dwal, errors and ybar fields still need to be updated on the part boundaries of the N parts, which is the purpose of M2NFixBnd
-* Run M2NFixBnd on N processes
+==== Running M2NFixBnd ====
-The value of the solution, dwal, errors and ybar fields still need to be updated on the part boundaries of the N parts, which is the purpose of M2NFixBnd
+<code>M2NFixBnd</code> is run on N processes.
      mpirun -np N  your-develop-dir-cmake/build-M2NFixBnd/M2NFixBnd
-Input: M2NFixBnd reads
+==== M2NFixBnd Inputs ====
-Output: M2NFixBnd produces
+M2NFixBnd reads
-  - N restart files under the posix format that overwrite the ones generated by M2N.
+* The solution, dwal, errors and ybars field from the N restart files under the Posix format produced by M2N in the previous step;
-* Example
+==== M2NFixBnd Outputs ====
 See
    /users/mrasquin/Models/CrossFlowTest/1-A0-Mixed-9.0/SyncIO-phPA/Runs-pumi-Tet-ts100/ReduceM2N-16TetPumi-8MixedSim/runReduceM2N.sh

@@ Line 48: / Line 48: @@
 The "M2N_input.dat" must include the following information:
   # time step of the restart files for solution, dwal, error and ybar.  It can be very useful when processing many files on queued systems to
-           # replace this number by Step2Red and then use sed in the submit script to replace it with a number entered on the command line
+           # replace this number (120)  by Step2Red and then use sed in the submit script to replace it with a number entered on the command line
            # e.g., Step2Red=$4
            #         sed "s/Step2Red/${Step2Red}/g" M2N_inputSed.dat > M2N_input.dat
-           # and replace th3 120 in this example by the string Step2Red for easy replacement just ahead of execution and $4 is the 4th argument on the submit script
+           # for easy replacement just ahead of execution and $4 is the 4th argument on the submit script passed to the run script with this insertion
   # time step of the restart files for partID and vtxID (mapping between M and N)
     # Reduce method: 0 = communicatoin based approach (recommended), 1 = file based approach.

@@ Line 9: / Line 9: @@
-== Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel ==
+== Reduction from M to N parts in // for phasta files initially partitioned with NSpre_parallel, phParAdapt-SCOREC or chef ==
 * Prerequisites:
-The tool described in this section apply to phasta files initially partitioned with phParAdapt-SCOREC. We consider here that M parts were generated from N parts with M>N (M is usually a multiple of N). A vertex mapping between the M parts and N parts needs to be generated by phParAdapt-SCOREC through the variable "buildMapping 1" in adapt.inp.
+The tool described in this section apply to phasta files initially partitioned with phParAdapt-SCOREC or chef. We consider here that M parts were generated from N parts with M>N (M is usually a multiple of N). A vertex mapping between the M parts and N parts needs to be generated by phParAdapt-SCOREC or chef through the variable "buildMapping 1" in adapt.inp.
 * Download the M2N and M2NFixBdn packages from
@@ Line 47: / Line 47: @@
 The "M2N_input.dat" must include the following information:
-  # time step of the restart files for solution, dwal, error and ybar
+  # time step of the restart files for solution, dwal, error and ybar.  It can be very useful when processing many files on queued systems to
   # time step of the restart files for partID and vtxID (mapping between M and N)
     # Reduce method: 0 = communicatoin based approach (recommended), 1 = file based approach.

← Older revision	Revision as of 17:52, 18 September 2022
(No difference)

← Older revision		Revision as of 22:47, 8 November 2013
Line 73:		Line 73:
	See		See

−	/users/mrasquin/Models/CrossFlowTest/1-A0-Mixed-9.0/~~1PFPP~~-phPA/8-~~1-PartGlobSim/8-8-ParGlobSCOREC~~-Tet~~-BeforePumi~~-ts100/16-8-~~PartGlobSCOREC-BeforePumi-ts100~~/~~ReduceM2N~~	+	/users/mrasquin/Models/CrossFlowTest/1-A0-Mixed-9.0/SyncIO-phPA/Runs-pumi-Tet-ts100/ReduceM2N-16TetPumi-8MixedSim/runReduceM2N.sh

← Older revision		Revision as of 20:33, 29 August 2013
Line 68:		Line 68:
	Output: M2NFixBnd produces		Output: M2NFixBnd produces
	- N restart files under the posix format that overwrite the ones generated by M2N.		- N restart files under the posix format that overwrite the ones generated by M2N.
		+
		+	* Example
		+
		+	See
		+
		+	/users/mrasquin/Models/CrossFlowTest/1-A0-Mixed-9.0/1PFPP-phPA/8-1-PartGlobSim/8-8-ParGlobSCOREC-Tet-BeforePumi-ts100/16-8-PartGlobSCOREC-BeforePumi-ts100/ReduceM2N

@@ Line 63: / Line 63: @@
 Input: M2NFixBnd reads
-   - the solution, dwal, errors and ybars field from the N restart files under the Posix format produced by M2N in the previous step
+   - The solution, dwal, errors and ybars field from the N restart files under the Posix format produced by M2N in the previous step;
-   - the ilwork array from the N geombc files  under the Posix format that matches the restart files produced by M2N.
+   - The ilwork array from the N geombc files  under the Posix format that matches the restart files produced by M2N.