# Examples » Inciter: Integrating the scalar advection equation for a smooth problem

This example runs Inciter to integrate the advection equation (see, e.g., PDE/Transport/CGTransport.h) configured to solve only the smooth portion of Zalesak's slotted cylinder (inciter::TransportProblemSlotCyl) problem.

This example slightly differs from Inciter: Integrating the scalar advection equation for a non-smooth problem, in that the non-smooth regions are commented out. This can be used to estimate the order of converge of the spatial and teporal discretization for smooth problems.

The following modification, applied in PDE/Transport/Problem/SlotCyl.h, removes the non-smooth part of the solution from the slotted cylinder case:

class TransportProblemSlotCyl {

private:
using ncomp_t = tk::ctr::ncomp_type;

public:
//! Evaluate analytical solution at (x,y,t) for all components
//! \param[in] ncomp Number of components in this transport equation system
//! \param[in] x X coordinate where to evaluate the solution
//! \param[in] y Y coordinate where to evaluate the solution
//! \param[in] t Time where to evaluate the solution
//! \return Values of all components evaluated at (x,y,t)
static std::vector< tk::real >
solution( ncomp_t, ncomp_t ncomp,
tk::real x, tk::real y, tk::real, tk::real t )
{
using std::sin; using std::cos;
std::vector< tk::real > s( ncomp, 0.0 );
for (ncomp_t c=0; c<ncomp; ++c) {
auto T = t + 2.0*M_PI/ncomp * c;
const tk::real R0 = 0.15;
// center of the cone
tk::real x0 = 0.5;
tk::real y0 = 0.25;
tk::real r = std::sqrt((x0-0.5)*(x0-0.5) + (y0-0.5)*(y0-0.5));
tk::real kx = 0.5 + r*sin( T );
tk::real ky = 0.5 - r*cos( T );
// center of the hump
x0 = 0.25;
y0 = 0.5;
r = std::sqrt((x0-0.5)*(x0-0.5) + (y0-0.5)*(y0-0.5));
tk::real hx = 0.5 + r*sin( T-M_PI/2.0 ),
hy = 0.5 - r*cos( T-M_PI/2.0 );
// center of the slotted cylinder
x0 = 0.5;
y0 = 0.75;
r = std::sqrt((x0-0.5)*(x0-0.5) + (y0-0.5)*(y0-0.5));
tk::real cx = 0.5 + r*sin( T+M_PI ),
cy = 0.5 - r*cos( T+M_PI );
// end points of the cylinder slot
tk::real i1x = 0.525, i1y = cy - r*cos( std::asin(0.025/r) ),
i2x = 0.525, i2y = 0.8,
i3x = 0.475, i3y = 0.8;
// rotate end points of cylinder slot
tk::real ri1x = 0.5 + cos(T)*(i1x-0.5) - sin(T)*(i1y-0.5),
ri1y = 0.5 + sin(T)*(i1x-0.5) + cos(T)*(i1y-0.5),
ri2x = 0.5 + cos(T)*(i2x-0.5) - sin(T)*(i2y-0.5),
ri2y = 0.5 + sin(T)*(i2x-0.5) + cos(T)*(i2y-0.5),
ri3x = 0.5 + cos(T)*(i3x-0.5) - sin(T)*(i3y-0.5),
ri3y = 0.5 + sin(T)*(i3x-0.5) + cos(T)*(i3y-0.5);
// direction of slot sides
tk::real v1x = ri2x-ri1x, v1y = ri2y-ri1y,
v2x = ri3x-ri2x, v2y = ri3y-ri2y;
// lengths of direction of slot sides vectors
tk::real v1 = std::sqrt(v1x*v1x + v1y*v1y),
v2 = std::sqrt(v2x*v2x + v2y*v2y);
// cone
//         r = std::sqrt((x-kx)*(x-kx) + (y-ky)*(y-ky)) / R0;
//         if (r<1.0) s[c] = 0.6*(1.0-r);
// hump
r = std::sqrt((x-hx)*(x-hx) + (y-hy)*(y-hy)) / R0;
if (r<1.0) s[c] = 0.2*(1.0+cos(M_PI*std::min(r,1.0)));
// cylinder
//         r = std::sqrt((x-cx)*(x-cx) + (y-cy)*(y-cy)) / R0;
//         const std::array< tk::real, 2 > r1{{ v1x, v1y }},
//                                         r2{{ x-ri1x, y-ri1y }};
//         const auto d1 = (r1[0]*r2[1] - r2[0]*r1[1]) / v1;
//         const std::array< tk::real, 2 > r3{{ v2x, v2y }},
//                                         r4{{ x-ri2x, y-ri2y }};
//         const auto d2 = (r3[0]*r4[1] - r4[0]*r3[1]) / v2;
//         if (r<1.0 && (d1>0.05 || d1<0.0 || d2<0.0)) s[c] = 0.6;
}
return s;
}
...
}

## Control file

The control file is the same as that of the slotted cylinder problem, see also inciter_exampl_slot_cyl.

# vim: filetype=sh:
# This is a comment
# Keywords are case-sensitive

title "Zalesak's slotted cylinder"

inciter

#nstep 10  # Max number of time steps
#term 6.28318530718  # Max time = 2*pi
term 1.57079632679  # Max time = pi/2
#term 0.78539816339  # Max time = pi/4
#term 0.39270  # Max time = pi/8
cfl  0.5
ttyi 10      # TTY output interval
ctau 1.0  # FCT mass diffusivity

transport
problem slot_cyl
ncomp 1
end

plotvar
interval 100
end

end

## Output for three runs (750K, 6M, and 48M)

\$ ./charmrun +p36 Main/inciter -v -c slot_cyl.q -i unitcube_01_750K.exo

Running on 36 processors:  Main/inciter -v -c slot_cyl.q -i unitcube_01_750K.exo
charmrun>  /usr/bin/setarch x86_64 -R  mpirun -np 36  Main/inciter -v -c slot_cyl.q -i unitcube_01_750K.exo
Charm++> Running on MPI version: 3.1
Charm++> Running in non-SMP mode: numPes 36
Converse/Charm++ Commit ID:
CharmLB> Load balancer assumes all CPUs are same.
Charm++> Running on 1 unique compute nodes (36-way SMP).
Charm++> cpu topology info is gathered in 0.014 seconds.

,::,`                                                            `.
.;;;'';;;:                                                          ;;#
;;;@+   +;;;  ;;;;;,   ;;;;. ;;;;;, ;;;;      ;;;;   `;;;;;;:        ;;;
:;;@`     :;;' .;;;@,    ,;@, ,;;;@: .;;;'     .;+;. ;;;@#:';;;      ;;;;'
;;;#       ;;;: ;;;'      ;:   ;;;'   ;;;;;     ;#  ;;;@     ;;;     ;+;;'
.;;+        ;;;# ;;;'      ;:   ;;;'   ;#;;;`    ;#  ;;@      `;;+   .;#;;;.
;;;#        :;;' ;;;'      ;:   ;;;'   ;# ;;;    ;# ;;;@       ;;;   ;# ;;;+
;;;#        .;;; ;;;'      ;:   ;;;'   ;# ,;;;   ;# ;;;#       ;;;:  ;@  ;;;
;;;#        .;;' ;;;'      ;:   ;;;'   ;#  ;;;;  ;# ;;;'       ;;;+ ;',  ;;;@
;;;+        ,;;+ ;;;'      ;:   ;;;'   ;#   ;;;' ;# ;;;'       ;;;' ;':::;;;;
`;;;        ;;;@ ;;;'      ;:   ;;;'   ;#    ;;;';# ;;;@       ;;;:,;+++++;;;'
;;;;       ;;;@ ;;;#     .;.   ;;;'   ;#     ;;;;# `;;+       ;;# ;#     ;;;'
.;;;      :;;@  ,;;+     ;+    ;;;'   ;#      ;;;#  ;;;      ;;;@ ;@      ;;;.
';;;    ;;;@,   ;;;;``.;;@    ;;;'   ;+      .;;#   ;;;    :;;@ ;;;      ;;;+
:;;;;;;;+@`     ';;;;;'@    ;;;;;, ;;;;      ;;+    +;;;;;;#@ ;;;;.   .;;;;;;
.;;#@'         `#@@@:     ;::::; ;::::      ;@      '@@@+   ;:::;    ;::::::
:;;;;;;.     .___              .__  __
.;@+@';;;;;;' |   | ____   ____ |__|/  |_  ___________
`     '#''@` |   |/    \_/ ___\|  \   __\/ __ \_  __ \
|   |   |  \  \___|  ||  | \  ___/|  | \/
|___|___|  /\___  >__||__|  \___  >__|
\/     \/              \/

< ENVIRONMENT >
------ o ------

* Build environment:
--------------------
Hostname                       : lagrange
Executable                     : inciter
Version                        : 0.1 (C16015)
Revision SHA1                  : Quinoa_v0.1-914-g40abfa98
CMake build type               : RELEASE
Asserts                        : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
Exception trace                : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
MPI C++ wrapper                : /usr/bin/mpicxx
Underlying C++ compiler        : /usr/bin/g++
Build date                     : Sun Jun  4 13:51:45 MDT 2017

* Run-time environment:
-----------------------
Date, time                     : Mon Jun  5 07:07:37 2017
Work directory                 : /home/jbakosi/code/quinoa/build/gnu
Executable (rel. to work dir)  : Main/inciter
Command line arguments         : '-v -c slot_cyl.q -i unitcube_01_750K.exo'
Output                         : verbose (quiet: omit -v)
Control file                   : slot_cyl.q
Parsed control file            : success

< FACTORY >
---- o ----

* Unknowns data layout (CMake: FIELD_DATA_LAYOUT):
--------------------------------------------------
unknown-major

* Registered partial differential equations:
--------------------------------------------
Unique equation types          : 2
With all policy combinations   : 12

Legend: equation name : supported policies

Policy codes:
* h: physics configuration:
L - Laplace
N - Navier-Stokes
E - Euler
* r: problem:
U - User-defined
S - Shear-diffusion
D - Dirichlet & Neumann
V - Vortical flow
V - Nonlinear energy growth
V - Rayleigh-Taylor
Z - Zalesak's slotted cylinder

Compressible flow              : h:EN, r:UV

< PROBLEM >
---- o ----

* Title: Zalesak's slotted cylinder
-----------------------------------

* Partial differential equations integrated (1):
------------------------------------------------
< Transport >
problem                        : Zalesak's slotted cylinder
start offset in unknowns array : 0
number of components           : 1

* Discretization parameters:
----------------------------
Number of time steps           : 18446744073709551615
Start time                     : 0
Terminate time                 : 1.5708
CFL coefficient                : 0.5
Mass diffusion coeff           : 1

* Output filenames:
-------------------
Field                          : out.<chareid>
Diagnostics                    : diag

* Output intervals:
-------------------
TTY                            : 1
Field                          : 10
Diagnostics                    : 1

Quinoa> Reading side sets ... done
Quinoa> Creating linear system mergers
Quinoa> Creating particle writers
Quinoa> Creating partitioners and reading mesh graph ... done

* Input mesh graph statistics:
------------------------------
Number of tetrahedra           : 750000
Number of nodes                : 132651

--------------------
Virtualization [0.0...1.0]     : 0
Load (number of tetrahedra)    : 750000
Number of processing elements  : 36
Number of work units           : 36 (35*20833+20845)

* Initial mesh partitioning:
----------------------------
Mesh partitioning algorithm    : recursive coordinate bisection

Quinoa> Mesh read time: 0.021658 sec
Quinoa> Partitioning and distributing mesh ... ZOLTAN Load balancing method = 3 (RCB)
Build configuration:

ZOLTAN_ID_TYPE: unsigned int (4 bytes)
ZOLTAN_GNO_TYPE: ssize_t, (8 bytes)
MPI_Datatype for ZOLTAN_ID_TYPE: MPI_UNSIGNED
MPI_Datatype for ZOLTAN_GNO_TYPE: MPI_LONG

ZOLTAN Parameter IMBALANCE_TOL[0] = 1.100000
ZOLTAN Parameter AUTO_MIGRATE = FALSE
ZOLTAN Parameter MIGRATE_ONLY_PROC_CHANGES = 1
ZOLTAN Parameter OBJ_WEIGHT_DIM = 0
ZOLTAN Parameter EDGE_WEIGHT_DIM = 0
ZOLTAN Parameter DEBUG_LEVEL = 1
ZOLTAN Parameter DEBUG_PROCESSOR = 0
ZOLTAN Parameter DETERMINISTIC = TRUE
ZOLTAN Parameter TIMER = 1 (wall)
ZOLTAN Parameter NUM_GID_ENTRIES = 2
ZOLTAN Parameter NUM_LID_ENTRIES = 2
ZOLTAN Parameter RETURN_LISTS = PARTITION ASSIGNMENTS
ZOLTAN Parameter NUM_GLOBAL_PARTS = 36
ZOLTAN Parameter NUM_LOCAL_PARTS = -1
ZOLTAN Parameter REMAP = 1
ZOLTAN Parameter SEED = 123456789 (123456789)
ZOLTAN Parameter LB_APPROACH = repartition
ZOLTAN Parameter RCB_OVERALLOC = 1.200000
ZOLTAN Parameter RCB_REUSE = 0
ZOLTAN Parameter CHECK_GEOM = 1
ZOLTAN Parameter RCB_OUTPUT_LEVEL = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter RCB_LOCK_DIRECTIONS = 0
ZOLTAN Parameter RCB_SET_DIRECTIONS = 0
ZOLTAN Parameter RCB_RECTILINEAR_BLOCKS = 0
ZOLTAN Parameter OBJ_WEIGHTS_COMPARABLE = 0
ZOLTAN Parameter RCB_MULTICRITERIA_NORM = 1
ZOLTAN Parameter RCB_MAX_ASPECT_RATIO = 10.000000
ZOLTAN Parameter AVERAGE_CUTS = 0
ZOLTAN Parameter RANDOM_PIVOTS = 0
ZOLTAN Parameter RCB_RECOMPUTE_BOX = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 0.000000
ZOLTAN Parameter FINAL_OUTPUT = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 10.000000
done
Quinoa> Reordering mesh ... done
Quinoa> Creating workers
Quinoa> Linear system communication cost: avg = 0.195648, std = 0.097498
Quinoa> Reading mesh node coordinates, computing nodal volumes
Quinoa> Mesh statistics: min/max/avg(edgelength) = 0.020000 / 0.034641 / 0.025496
Quinoa> Mesh statistics: min/max/avg(V^{1/3}) = 0.011006 / 0.011006 / 0.011006
Quinoa> Computing row IDs, querying BCs, outputting mesh done
Quinoa> Setting and outputting ICs, computing initial dt, computing LHS ... done
Quinoa> Starting time stepping ...

* Time integration: Unstructured-mesh PDE solver testbed
--------------------------------------------------------
Legend: it - iteration count
t - time
dt - time step size
ETE - estimated time elapsed (h:m:s)
ETA - estimated time for accomplishment (h:m:s)
out - output-saved flags (F: field, D: diagnostics)

it             t            dt        ETE        ETA   out
---------------------------------------------------------------
1  7.782717e-03  7.782717e-03  000:00:00  000:00:28  D
2  1.556543e-02  7.782717e-03  000:00:00  000:00:28  D
3  2.334815e-02  7.782717e-03  000:00:00  000:00:28  D
4  3.113087e-02  7.782717e-03  000:00:00  000:00:29  D
5  3.891359e-02  7.782717e-03  000:00:00  000:00:29  D
6  4.669630e-02  7.782717e-03  000:00:00  000:00:29  D
7  5.447902e-02  7.782717e-03  000:00:01  000:00:30  D
8  6.226174e-02  7.782717e-03  000:00:01  000:00:30  D
9  7.004445e-02  7.782717e-03  000:00:01  000:00:30  D
10  7.782717e-02  7.782717e-03  000:00:01  000:00:31  FD
11  8.560989e-02  7.782717e-03  000:00:01  000:00:31  D
12  9.339261e-02  7.782717e-03  000:00:01  000:00:31  D
13  1.011753e-01  7.782717e-03  000:00:02  000:00:31  D
14  1.089580e-01  7.782717e-03  000:00:02  000:00:30  D
15  1.167408e-01  7.782717e-03  000:00:02  000:00:30  D
16  1.245235e-01  7.782717e-03  000:00:02  000:00:30  D
17  1.323062e-01  7.782717e-03  000:00:02  000:00:29  D
18  1.400889e-01  7.782717e-03  000:00:02  000:00:29  D
19  1.478716e-01  7.782717e-03  000:00:03  000:00:29  D
20  1.556543e-01  7.782717e-03  000:00:03  000:00:29  FD
21  1.634371e-01  7.782717e-03  000:00:03  000:00:29  D
22  1.712198e-01  7.782717e-03  000:00:03  000:00:29  D
23  1.790025e-01  7.782717e-03  000:00:03  000:00:30  D
24  1.867852e-01  7.782717e-03  000:00:04  000:00:30  D
25  1.945679e-01  7.782717e-03  000:00:04  000:00:30  D
26  2.023506e-01  7.782717e-03  000:00:04  000:00:30  D
27  2.101334e-01  7.782717e-03  000:00:04  000:00:30  D
28  2.179161e-01  7.782717e-03  000:00:04  000:00:29  D
29  2.256988e-01  7.782717e-03  000:00:04  000:00:29  D
30  2.334815e-01  7.782717e-03  000:00:05  000:00:29  FD
31  2.412642e-01  7.782717e-03  000:00:05  000:00:29  D
32  2.490469e-01  7.782717e-03  000:00:05  000:00:28  D
33  2.568297e-01  7.782717e-03  000:00:05  000:00:28  D
34  2.646124e-01  7.782717e-03  000:00:05  000:00:28  D
35  2.723951e-01  7.782717e-03  000:00:05  000:00:28  D
36  2.801778e-01  7.782717e-03  000:00:06  000:00:27  D
37  2.879605e-01  7.782717e-03  000:00:06  000:00:27  D
38  2.957433e-01  7.782717e-03  000:00:06  000:00:27  D
39  3.035260e-01  7.782717e-03  000:00:06  000:00:27  D
40  3.113087e-01  7.782717e-03  000:00:06  000:00:27  FD
41  3.190914e-01  7.782717e-03  000:00:06  000:00:26  D
42  3.268741e-01  7.782717e-03  000:00:07  000:00:26  D
43  3.346568e-01  7.782717e-03  000:00:07  000:00:26  D
44  3.424396e-01  7.782717e-03  000:00:07  000:00:26  D
45  3.502223e-01  7.782717e-03  000:00:07  000:00:26  D
46  3.580050e-01  7.782717e-03  000:00:07  000:00:26  D
47  3.657877e-01  7.782717e-03  000:00:07  000:00:25  D
48  3.735704e-01  7.782717e-03  000:00:07  000:00:25  D
49  3.813531e-01  7.782717e-03  000:00:08  000:00:25  D
50  3.891359e-01  7.782717e-03  000:00:08  000:00:25  FD
51  3.969186e-01  7.782717e-03  000:00:08  000:00:25  D
52  4.047013e-01  7.782717e-03  000:00:08  000:00:24  D
53  4.124840e-01  7.782717e-03  000:00:08  000:00:24  D
54  4.202667e-01  7.782717e-03  000:00:08  000:00:24  D
55  4.280494e-01  7.782717e-03  000:00:09  000:00:24  D
56  4.358322e-01  7.782717e-03  000:00:09  000:00:24  D
57  4.436149e-01  7.782717e-03  000:00:09  000:00:23  D
58  4.513976e-01  7.782717e-03  000:00:09  000:00:23  D
59  4.591803e-01  7.782717e-03  000:00:09  000:00:23  D
60  4.669630e-01  7.782717e-03  000:00:09  000:00:23  FD
61  4.747457e-01  7.782717e-03  000:00:10  000:00:23  D
62  4.825285e-01  7.782717e-03  000:00:10  000:00:23  D
63  4.903112e-01  7.782717e-03  000:00:10  000:00:22  D
64  4.980939e-01  7.782717e-03  000:00:10  000:00:22  D
65  5.058766e-01  7.782717e-03  000:00:10  000:00:22  D
66  5.136593e-01  7.782717e-03  000:00:10  000:00:22  D
67  5.214420e-01  7.782717e-03  000:00:10  000:00:22  D
68  5.292248e-01  7.782717e-03  000:00:11  000:00:21  D
69  5.370075e-01  7.782717e-03  000:00:11  000:00:21  D
70  5.447902e-01  7.782717e-03  000:00:11  000:00:21  FD
71  5.525729e-01  7.782717e-03  000:00:11  000:00:21  D
72  5.603556e-01  7.782717e-03  000:00:11  000:00:21  D
73  5.681384e-01  7.782717e-03  000:00:11  000:00:21  D
74  5.759211e-01  7.782717e-03  000:00:12  000:00:21  D
75  5.837038e-01  7.782717e-03  000:00:12  000:00:20  D
76  5.914865e-01  7.782717e-03  000:00:12  000:00:20  D
77  5.992692e-01  7.782717e-03  000:00:12  000:00:20  D
78  6.070519e-01  7.782717e-03  000:00:12  000:00:20  D
79  6.148347e-01  7.782717e-03  000:00:12  000:00:20  D
80  6.226174e-01  7.782717e-03  000:00:13  000:00:20  FD
81  6.304001e-01  7.782717e-03  000:00:13  000:00:19  D
82  6.381828e-01  7.782717e-03  000:00:13  000:00:19  D
83  6.459655e-01  7.782717e-03  000:00:13  000:00:19  D
84  6.537482e-01  7.782717e-03  000:00:13  000:00:19  D
85  6.615310e-01  7.782717e-03  000:00:13  000:00:19  D
86  6.693137e-01  7.782717e-03  000:00:14  000:00:19  D
87  6.770964e-01  7.782717e-03  000:00:14  000:00:18  D
88  6.848791e-01  7.782717e-03  000:00:14  000:00:18  D
89  6.926618e-01  7.782717e-03  000:00:14  000:00:18  D
90  7.004445e-01  7.782717e-03  000:00:14  000:00:18  FD
91  7.082273e-01  7.782717e-03  000:00:14  000:00:18  D
92  7.160100e-01  7.782717e-03  000:00:15  000:00:18  D
93  7.237927e-01  7.782717e-03  000:00:15  000:00:17  D
94  7.315754e-01  7.782717e-03  000:00:15  000:00:17  D
95  7.393581e-01  7.782717e-03  000:00:15  000:00:17  D
96  7.471408e-01  7.782717e-03  000:00:15  000:00:17  D
97  7.549236e-01  7.782717e-03  000:00:15  000:00:17  D
98  7.627063e-01  7.782717e-03  000:00:16  000:00:17  D
99  7.704890e-01  7.782717e-03  000:00:16  000:00:16  D
100  7.782717e-01  7.782717e-03  000:00:16  000:00:16  FD
101  7.860544e-01  7.782717e-03  000:00:16  000:00:16  D
102  7.938372e-01  7.782717e-03  000:00:16  000:00:16  D
103  8.016199e-01  7.782717e-03  000:00:16  000:00:16  D
104  8.094026e-01  7.782717e-03  000:00:17  000:00:15  D
105  8.171853e-01  7.782717e-03  000:00:17  000:00:15  D
106  8.249680e-01  7.782717e-03  000:00:17  000:00:15  D
107  8.327507e-01  7.782717e-03  000:00:17  000:00:15  D
108  8.405335e-01  7.782717e-03  000:00:17  000:00:15  D
109  8.483162e-01  7.782717e-03  000:00:17  000:00:15  D
110  8.560989e-01  7.782717e-03  000:00:17  000:00:15  FD
111  8.638816e-01  7.782717e-03  000:00:18  000:00:14  D
112  8.716643e-01  7.782717e-03  000:00:18  000:00:14  D
113  8.794470e-01  7.782717e-03  000:00:18  000:00:14  D
114  8.872298e-01  7.782717e-03  000:00:18  000:00:14  D
115  8.950125e-01  7.782717e-03  000:00:18  000:00:14  D
116  9.027952e-01  7.782717e-03  000:00:18  000:00:14  D
117  9.105779e-01  7.782717e-03  000:00:19  000:00:13  D
118  9.183606e-01  7.782717e-03  000:00:19  000:00:13  D
119  9.261433e-01  7.782717e-03  000:00:19  000:00:13  D
120  9.339261e-01  7.782717e-03  000:00:19  000:00:13  FD
121  9.417088e-01  7.782717e-03  000:00:20  000:00:13  D
122  9.494915e-01  7.782717e-03  000:00:20  000:00:13  D
123  9.572742e-01  7.782717e-03  000:00:20  000:00:13  D
124  9.650569e-01  7.782717e-03  000:00:20  000:00:13  D
125  9.728396e-01  7.782717e-03  000:00:20  000:00:12  D
126  9.806224e-01  7.782717e-03  000:00:21  000:00:12  D
127  9.884051e-01  7.782717e-03  000:00:21  000:00:12  D
128  9.961878e-01  7.782717e-03  000:00:21  000:00:12  D
129  1.003971e+00  7.782717e-03  000:00:21  000:00:12  D
130  1.011753e+00  7.782717e-03  000:00:21  000:00:12  FD
131  1.019536e+00  7.782717e-03  000:00:21  000:00:11  D
132  1.027319e+00  7.782717e-03  000:00:22  000:00:11  D
133  1.035101e+00  7.782717e-03  000:00:22  000:00:11  D
134  1.042884e+00  7.782717e-03  000:00:22  000:00:11  D
135  1.050667e+00  7.782717e-03  000:00:22  000:00:11  D
136  1.058450e+00  7.782717e-03  000:00:23  000:00:11  D
137  1.066232e+00  7.782717e-03  000:00:23  000:00:10  D
138  1.074015e+00  7.782717e-03  000:00:23  000:00:10  D
139  1.081798e+00  7.782717e-03  000:00:23  000:00:10  D
140  1.089580e+00  7.782717e-03  000:00:23  000:00:10  FD
141  1.097363e+00  7.782717e-03  000:00:23  000:00:10  D
142  1.105146e+00  7.782717e-03  000:00:24  000:00:10  D
143  1.112929e+00  7.782717e-03  000:00:24  000:00:10  D
144  1.120711e+00  7.782717e-03  000:00:24  000:00:09  D
145  1.128494e+00  7.782717e-03  000:00:24  000:00:09  D
146  1.136277e+00  7.782717e-03  000:00:24  000:00:09  D
147  1.144059e+00  7.782717e-03  000:00:25  000:00:09  D
148  1.151842e+00  7.782717e-03  000:00:25  000:00:09  D
149  1.159625e+00  7.782717e-03  000:00:25  000:00:09  D
150  1.167408e+00  7.782717e-03  000:00:25  000:00:08  FD
151  1.175190e+00  7.782717e-03  000:00:25  000:00:08  D
152  1.182973e+00  7.782717e-03  000:00:25  000:00:08  D
153  1.190756e+00  7.782717e-03  000:00:26  000:00:08  D
154  1.198538e+00  7.782717e-03  000:00:26  000:00:08  D
155  1.206321e+00  7.782717e-03  000:00:26  000:00:08  D
156  1.214104e+00  7.782717e-03  000:00:26  000:00:07  D
157  1.221887e+00  7.782717e-03  000:00:26  000:00:07  D
158  1.229669e+00  7.782717e-03  000:00:27  000:00:07  D
159  1.237452e+00  7.782717e-03  000:00:27  000:00:07  D
160  1.245235e+00  7.782717e-03  000:00:27  000:00:07  FD
161  1.253017e+00  7.782717e-03  000:00:27  000:00:07  D
162  1.260800e+00  7.782717e-03  000:00:27  000:00:06  D
163  1.268583e+00  7.782717e-03  000:00:28  000:00:06  D
164  1.276366e+00  7.782717e-03  000:00:28  000:00:06  D
165  1.284148e+00  7.782717e-03  000:00:28  000:00:06  D
166  1.291931e+00  7.782717e-03  000:00:28  000:00:06  D
167  1.299714e+00  7.782717e-03  000:00:28  000:00:06  D
168  1.307496e+00  7.782717e-03  000:00:29  000:00:05  D
169  1.315279e+00  7.782717e-03  000:00:29  000:00:05  D
170  1.323062e+00  7.782717e-03  000:00:29  000:00:05  FD
171  1.330845e+00  7.782717e-03  000:00:29  000:00:05  D
172  1.338627e+00  7.782717e-03  000:00:29  000:00:05  D
173  1.346410e+00  7.782717e-03  000:00:30  000:00:05  D
174  1.354193e+00  7.782717e-03  000:00:30  000:00:04  D
175  1.361976e+00  7.782717e-03  000:00:30  000:00:04  D
176  1.369758e+00  7.782717e-03  000:00:30  000:00:04  D
177  1.377541e+00  7.782717e-03  000:00:30  000:00:04  D
178  1.385324e+00  7.782717e-03  000:00:30  000:00:04  D
179  1.393106e+00  7.782717e-03  000:00:31  000:00:03  D
180  1.400889e+00  7.782717e-03  000:00:31  000:00:03  FD
181  1.408672e+00  7.782717e-03  000:00:31  000:00:03  D
182  1.416455e+00  7.782717e-03  000:00:31  000:00:03  D
183  1.424237e+00  7.782717e-03  000:00:31  000:00:03  D
184  1.432020e+00  7.782717e-03  000:00:31  000:00:03  D
185  1.439803e+00  7.782717e-03  000:00:32  000:00:02  D
186  1.447585e+00  7.782717e-03  000:00:32  000:00:02  D
187  1.455368e+00  7.782717e-03  000:00:32  000:00:02  D
188  1.463151e+00  7.782717e-03  000:00:32  000:00:02  D
189  1.470934e+00  7.782717e-03  000:00:32  000:00:02  D
190  1.478716e+00  7.782717e-03  000:00:32  000:00:02  FD
191  1.486499e+00  7.782717e-03  000:00:33  000:00:01  D
192  1.494282e+00  7.782717e-03  000:00:33  000:00:01  D
193  1.502064e+00  7.782717e-03  000:00:33  000:00:01  D
194  1.509847e+00  7.782717e-03  000:00:33  000:00:01  D
195  1.517630e+00  7.782717e-03  000:00:33  000:00:01  D
196  1.525413e+00  7.782717e-03  000:00:33  000:00:01  D
197  1.533195e+00  7.782717e-03  000:00:34  000:00:00  D
198  1.540978e+00  7.782717e-03  000:00:34  000:00:00  D
199  1.548761e+00  7.782717e-03  000:00:34  000:00:00  D
200  1.556543e+00  7.782717e-03  000:00:34  000:00:00  FD
201  1.564326e+00  7.782717e-03  000:00:34  000:00:00  D
202  1.570796e+00  6.470177e-03  000:00:34  000:00:00  D

Normal finish, maximum time reached: 1.570796

* Timers (h:m:s):
-----------------
Migrate global-scope data                                                   : 0:0:0
Total runtime                                                               : 0:0:35

[Partition 0][Node 0] End of program
\$ cp diag diag.750K
\$ ./charmrun +p36 Main/inciter -v -c slot_cyl.q -i unitcube_01_6M.exo

Running on 36 processors:  Main/inciter -v -c slot_cyl.q -i unitcube_01_6M.exo
charmrun>  /usr/bin/setarch x86_64 -R  mpirun -np 36  Main/inciter -v -c slot_cyl.q -i unitcube_01_6M.exo
Charm++> Running on MPI version: 3.1
Charm++> Running in non-SMP mode: numPes 36
Converse/Charm++ Commit ID:
CharmLB> Load balancer assumes all CPUs are same.
Charm++> Running on 1 unique compute nodes (36-way SMP).
Charm++> cpu topology info is gathered in 0.022 seconds.

,::,`                                                            `.
.;;;'';;;:                                                          ;;#
;;;@+   +;;;  ;;;;;,   ;;;;. ;;;;;, ;;;;      ;;;;   `;;;;;;:        ;;;
:;;@`     :;;' .;;;@,    ,;@, ,;;;@: .;;;'     .;+;. ;;;@#:';;;      ;;;;'
;;;#       ;;;: ;;;'      ;:   ;;;'   ;;;;;     ;#  ;;;@     ;;;     ;+;;'
.;;+        ;;;# ;;;'      ;:   ;;;'   ;#;;;`    ;#  ;;@      `;;+   .;#;;;.
;;;#        :;;' ;;;'      ;:   ;;;'   ;# ;;;    ;# ;;;@       ;;;   ;# ;;;+
;;;#        .;;; ;;;'      ;:   ;;;'   ;# ,;;;   ;# ;;;#       ;;;:  ;@  ;;;
;;;#        .;;' ;;;'      ;:   ;;;'   ;#  ;;;;  ;# ;;;'       ;;;+ ;',  ;;;@
;;;+        ,;;+ ;;;'      ;:   ;;;'   ;#   ;;;' ;# ;;;'       ;;;' ;':::;;;;
`;;;        ;;;@ ;;;'      ;:   ;;;'   ;#    ;;;';# ;;;@       ;;;:,;+++++;;;'
;;;;       ;;;@ ;;;#     .;.   ;;;'   ;#     ;;;;# `;;+       ;;# ;#     ;;;'
.;;;      :;;@  ,;;+     ;+    ;;;'   ;#      ;;;#  ;;;      ;;;@ ;@      ;;;.
';;;    ;;;@,   ;;;;``.;;@    ;;;'   ;+      .;;#   ;;;    :;;@ ;;;      ;;;+
:;;;;;;;+@`     ';;;;;'@    ;;;;;, ;;;;      ;;+    +;;;;;;#@ ;;;;.   .;;;;;;
.;;#@'         `#@@@:     ;::::; ;::::      ;@      '@@@+   ;:::;    ;::::::
:;;;;;;.     .___              .__  __
.;@+@';;;;;;' |   | ____   ____ |__|/  |_  ___________
`     '#''@` |   |/    \_/ ___\|  \   __\/ __ \_  __ \
|   |   |  \  \___|  ||  | \  ___/|  | \/
|___|___|  /\___  >__||__|  \___  >__|
\/     \/              \/

< ENVIRONMENT >
------ o ------

* Build environment:
--------------------
Hostname                       : lagrange
Executable                     : inciter
Version                        : 0.1 (C16015)
Revision SHA1                  : Quinoa_v0.1-914-g40abfa98
CMake build type               : RELEASE
Asserts                        : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
Exception trace                : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
MPI C++ wrapper                : /usr/bin/mpicxx
Underlying C++ compiler        : /usr/bin/g++
Build date                     : Sun Jun  4 13:51:45 MDT 2017

* Run-time environment:
-----------------------
Date, time                     : Mon Jun  5 07:08:32 2017
Work directory                 : /home/jbakosi/code/quinoa/build/gnu
Executable (rel. to work dir)  : Main/inciter
Command line arguments         : '-v -c slot_cyl.q -i unitcube_01_6M.exo'
Output                         : verbose (quiet: omit -v)
Control file                   : slot_cyl.q
Parsed control file            : success

< FACTORY >
---- o ----

* Unknowns data layout (CMake: FIELD_DATA_LAYOUT):
--------------------------------------------------
unknown-major

* Registered partial differential equations:
--------------------------------------------
Unique equation types          : 2
With all policy combinations   : 12

Legend: equation name : supported policies

Policy codes:
* h: physics configuration:
L - Laplace
N - Navier-Stokes
E - Euler
* r: problem:
U - User-defined
S - Shear-diffusion
D - Dirichlet & Neumann
V - Vortical flow
V - Nonlinear energy growth
V - Rayleigh-Taylor
Z - Zalesak's slotted cylinder

Compressible flow              : h:EN, r:UV

< PROBLEM >
---- o ----

* Title: Zalesak's slotted cylinder
-----------------------------------

* Partial differential equations integrated (1):
------------------------------------------------
< Transport >
problem                        : Zalesak's slotted cylinder
start offset in unknowns array : 0
number of components           : 1

* Discretization parameters:
----------------------------
Number of time steps           : 18446744073709551615
Start time                     : 0
Terminate time                 : 1.5708
CFL coefficient                : 0.5
Mass diffusion coeff           : 1

* Output filenames:
-------------------
Field                          : out.<chareid>
Diagnostics                    : diag

* Output intervals:
-------------------
TTY                            : 1
Field                          : 10
Diagnostics                    : 1

Quinoa> Reading side sets ... done
Quinoa> Creating linear system mergers
Quinoa> Creating particle writers
Quinoa> Creating partitioners and reading mesh graph ... done

* Input mesh graph statistics:
------------------------------
Number of tetrahedra           : 6000000
Number of nodes                : 1030301

--------------------
Virtualization [0.0...1.0]     : 0
Load (number of tetrahedra)    : 6000000
Number of processing elements  : 36
Number of work units           : 36 (35*166666+166690)

* Initial mesh partitioning:
----------------------------
Mesh partitioning algorithm    : recursive coordinate bisection

Quinoa> Mesh read time: 0.230858 sec
Quinoa> Partitioning and distributing mesh ... ZOLTAN Load balancing method = 3 (RCB)
Build configuration:

ZOLTAN_ID_TYPE: unsigned int (4 bytes)
ZOLTAN_GNO_TYPE: ssize_t, (8 bytes)
MPI_Datatype for ZOLTAN_ID_TYPE: MPI_UNSIGNED
MPI_Datatype for ZOLTAN_GNO_TYPE: MPI_LONG

ZOLTAN Parameter IMBALANCE_TOL[0] = 1.100000
ZOLTAN Parameter AUTO_MIGRATE = FALSE
ZOLTAN Parameter MIGRATE_ONLY_PROC_CHANGES = 1
ZOLTAN Parameter OBJ_WEIGHT_DIM = 0
ZOLTAN Parameter EDGE_WEIGHT_DIM = 0
ZOLTAN Parameter DEBUG_LEVEL = 1
ZOLTAN Parameter DEBUG_PROCESSOR = 0
ZOLTAN Parameter DETERMINISTIC = TRUE
ZOLTAN Parameter TIMER = 1 (wall)
ZOLTAN Parameter NUM_GID_ENTRIES = 2
ZOLTAN Parameter NUM_LID_ENTRIES = 2
ZOLTAN Parameter RETURN_LISTS = PARTITION ASSIGNMENTS
ZOLTAN Parameter NUM_GLOBAL_PARTS = 36
ZOLTAN Parameter NUM_LOCAL_PARTS = -1
ZOLTAN Parameter REMAP = 1
ZOLTAN Parameter SEED = 123456789 (123456789)
ZOLTAN Parameter LB_APPROACH = repartition
ZOLTAN Parameter RCB_OVERALLOC = 1.200000
ZOLTAN Parameter RCB_REUSE = 0
ZOLTAN Parameter CHECK_GEOM = 1
ZOLTAN Parameter RCB_OUTPUT_LEVEL = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter RCB_LOCK_DIRECTIONS = 0
ZOLTAN Parameter RCB_SET_DIRECTIONS = 0
ZOLTAN Parameter RCB_RECTILINEAR_BLOCKS = 0
ZOLTAN Parameter OBJ_WEIGHTS_COMPARABLE = 0
ZOLTAN Parameter RCB_MULTICRITERIA_NORM = 1
ZOLTAN Parameter RCB_MAX_ASPECT_RATIO = 10.000000
ZOLTAN Parameter AVERAGE_CUTS = 0
ZOLTAN Parameter RANDOM_PIVOTS = 0
ZOLTAN Parameter RCB_RECOMPUTE_BOX = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 0.000000
ZOLTAN Parameter FINAL_OUTPUT = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 10.000000
done
Quinoa> Reordering mesh ... done
Quinoa> Creating workers
Quinoa> Reading mesh node coordinates, computing nodal volumes
Quinoa> Linear system communication cost: avg = 0.091166, std = 0.054424
Quinoa> Mesh statistics: min/max/avg(edgelength) = 0.010000 / 0.017321 / 0.012771
Quinoa> Mesh statistics: min/max/avg(V^{1/3}) = 0.005503 / 0.005503 / 0.005503
Quinoa> Computing row IDs, querying BCs, outputting mesh done
Quinoa> Setting and outputting ICs, computing initial dt, computing LHS ... done
Quinoa> Starting time stepping ...

* Time integration: Unstructured-mesh PDE solver testbed
--------------------------------------------------------
Legend: it - iteration count
t - time
dt - time step size
ETE - estimated time elapsed (h:m:s)
ETA - estimated time for accomplishment (h:m:s)
out - output-saved flags (F: field, D: diagnostics)

it             t            dt        ETE        ETA   out
---------------------------------------------------------------
1  3.891359e-03  3.891359e-03  000:00:01  000:08:19  D
2  7.782717e-03  3.891359e-03  000:00:02  000:08:38  D
3  1.167408e-02  3.891359e-03  000:00:03  000:08:47  D
4  1.556543e-02  3.891359e-03  000:00:05  000:08:42  D
5  1.945679e-02  3.891359e-03  000:00:06  000:08:48  D
6  2.334815e-02  3.891359e-03  000:00:07  000:08:46  D
7  2.723951e-02  3.891359e-03  000:00:09  000:09:11  D
8  3.113087e-02  3.891359e-03  000:00:11  000:09:09  D
9  3.502223e-02  3.891359e-03  000:00:12  000:09:10  D
10  3.891359e-02  3.891359e-03  000:00:13  000:09:08  FD
11  4.280494e-02  3.891359e-03  000:00:15  000:09:06  D
12  4.669630e-02  3.891359e-03  000:00:16  000:09:01  D
13  5.058766e-02  3.891359e-03  000:00:17  000:09:00  D
14  5.447902e-02  3.891359e-03  000:00:19  000:08:57  D
15  5.837038e-02  3.891359e-03  000:00:20  000:08:56  D
16  6.226174e-02  3.891359e-03  000:00:22  000:08:54  D
17  6.615310e-02  3.891359e-03  000:00:23  000:08:53  D
18  7.004445e-02  3.891359e-03  000:00:25  000:08:56  D
19  7.393581e-02  3.891359e-03  000:00:27  000:09:08  D
20  7.782717e-02  3.891359e-03  000:00:28  000:09:08  FD
21  8.171853e-02  3.891359e-03  000:00:30  000:09:07  D
22  8.560989e-02  3.891359e-03  000:00:31  000:09:05  D
23  8.950125e-02  3.891359e-03  000:00:32  000:09:02  D
24  9.339261e-02  3.891359e-03  000:00:34  000:08:59  D
25  9.728396e-02  3.891359e-03  000:00:35  000:08:57  D
26  1.011753e-01  3.891359e-03  000:00:36  000:08:55  D
27  1.050667e-01  3.891359e-03  000:00:38  000:08:53  D
28  1.089580e-01  3.891359e-03  000:00:39  000:08:51  D
29  1.128494e-01  3.891359e-03  000:00:40  000:08:49  D
30  1.167408e-01  3.891359e-03  000:00:42  000:08:51  FD
31  1.206321e-01  3.891359e-03  000:00:44  000:08:50  D
32  1.245235e-01  3.891359e-03  000:00:45  000:08:46  D
33  1.284148e-01  3.891359e-03  000:00:46  000:08:45  D
34  1.323062e-01  3.891359e-03  000:00:48  000:08:43  D
35  1.361976e-01  3.891359e-03  000:00:49  000:08:40  D
36  1.400889e-01  3.891359e-03  000:00:50  000:08:38  D
37  1.439803e-01  3.891359e-03  000:00:52  000:08:36  D
38  1.478716e-01  3.891359e-03  000:00:53  000:08:35  D
39  1.517630e-01  3.891359e-03  000:00:54  000:08:33  D
40  1.556543e-01  3.891359e-03  000:00:56  000:08:31  FD
41  1.595457e-01  3.891359e-03  000:00:57  000:08:29  D
42  1.634371e-01  3.891359e-03  000:00:59  000:08:32  D
43  1.673284e-01  3.891359e-03  000:01:00  000:08:30  D
44  1.712198e-01  3.891359e-03  000:01:02  000:08:28  D
45  1.751111e-01  3.891359e-03  000:01:03  000:08:26  D
46  1.790025e-01  3.891359e-03  000:01:04  000:08:25  D
47  1.828939e-01  3.891359e-03  000:01:06  000:08:23  D
48  1.867852e-01  3.891359e-03  000:01:07  000:08:21  D
49  1.906766e-01  3.891359e-03  000:01:09  000:08:19  D
50  1.945679e-01  3.891359e-03  000:01:10  000:08:17  FD
51  1.984593e-01  3.891359e-03  000:01:11  000:08:16  D
52  2.023506e-01  3.891359e-03  000:01:13  000:08:14  D
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285  1.109037e+00  3.891359e-03  000:06:45  000:02:49  D
286  1.112929e+00  3.891359e-03  000:06:47  000:02:47  D
287  1.116820e+00  3.891359e-03  000:06:48  000:02:46  D
288  1.120711e+00  3.891359e-03  000:06:50  000:02:44  D
289  1.124603e+00  3.891359e-03  000:06:51  000:02:43  D
290  1.128494e+00  3.891359e-03  000:06:52  000:02:41  FD
291  1.132385e+00  3.891359e-03  000:06:54  000:02:40  D
292  1.136277e+00  3.891359e-03  000:06:55  000:02:39  D
293  1.140168e+00  3.891359e-03  000:06:57  000:02:37  D
294  1.144059e+00  3.891359e-03  000:06:58  000:02:36  D
295  1.147951e+00  3.891359e-03  000:07:00  000:02:34  D
296  1.151842e+00  3.891359e-03  000:07:01  000:02:33  D
297  1.155733e+00  3.891359e-03  000:07:03  000:02:31  D
298  1.159625e+00  3.891359e-03  000:07:04  000:02:30  D
299  1.163516e+00  3.891359e-03  000:07:05  000:02:29  D
300  1.167408e+00  3.891359e-03  000:07:07  000:02:27  FD
301  1.171299e+00  3.891359e-03  000:07:08  000:02:26  D
302  1.175190e+00  3.891359e-03  000:07:10  000:02:24  D
303  1.179082e+00  3.891359e-03  000:07:11  000:02:23  D
304  1.182973e+00  3.891359e-03  000:07:12  000:02:21  D
305  1.186864e+00  3.891359e-03  000:07:14  000:02:20  D
306  1.190756e+00  3.891359e-03  000:07:15  000:02:19  D
307  1.194647e+00  3.891359e-03  000:07:17  000:02:17  D
308  1.198538e+00  3.891359e-03  000:07:18  000:02:16  D
309  1.202430e+00  3.891359e-03  000:07:20  000:02:14  D
310  1.206321e+00  3.891359e-03  000:07:21  000:02:13  FD
311  1.210213e+00  3.891359e-03  000:07:23  000:02:12  D
312  1.214104e+00  3.891359e-03  000:07:24  000:02:10  D
313  1.217995e+00  3.891359e-03  000:07:26  000:02:09  D
314  1.221887e+00  3.891359e-03  000:07:28  000:02:07  D
315  1.225778e+00  3.891359e-03  000:07:29  000:02:06  D
316  1.229669e+00  3.891359e-03  000:07:31  000:02:05  D
317  1.233561e+00  3.891359e-03  000:07:32  000:02:03  D
318  1.237452e+00  3.891359e-03  000:07:34  000:02:02  D
319  1.241343e+00  3.891359e-03  000:07:35  000:02:00  D
320  1.245235e+00  3.891359e-03  000:07:37  000:01:59  FD
321  1.249126e+00  3.891359e-03  000:07:38  000:01:58  D
322  1.253017e+00  3.891359e-03  000:07:39  000:01:56  D
323  1.256909e+00  3.891359e-03  000:07:41  000:01:55  D
324  1.260800e+00  3.891359e-03  000:07:42  000:01:53  D
325  1.264692e+00  3.891359e-03  000:07:43  000:01:52  D
326  1.268583e+00  3.891359e-03  000:07:45  000:01:50  D
327  1.272474e+00  3.891359e-03  000:07:46  000:01:49  D
328  1.276366e+00  3.891359e-03  000:07:48  000:01:48  D
329  1.280257e+00  3.891359e-03  000:07:50  000:01:46  D
330  1.284148e+00  3.891359e-03  000:07:51  000:01:45  FD
331  1.288040e+00  3.891359e-03  000:07:52  000:01:43  D
332  1.291931e+00  3.891359e-03  000:07:54  000:01:42  D
333  1.295822e+00  3.891359e-03  000:07:55  000:01:40  D
334  1.299714e+00  3.891359e-03  000:07:57  000:01:39  D
335  1.303605e+00  3.891359e-03  000:07:58  000:01:38  D
336  1.307496e+00  3.891359e-03  000:08:00  000:01:36  D
337  1.311388e+00  3.891359e-03  000:08:01  000:01:35  D
338  1.315279e+00  3.891359e-03  000:08:02  000:01:33  D
339  1.319171e+00  3.891359e-03  000:08:04  000:01:32  D
340  1.323062e+00  3.891359e-03  000:08:05  000:01:30  FD
341  1.326953e+00  3.891359e-03  000:08:07  000:01:29  D
342  1.330845e+00  3.891359e-03  000:08:08  000:01:28  D
343  1.334736e+00  3.891359e-03  000:08:10  000:01:26  D
344  1.338627e+00  3.891359e-03  000:08:11  000:01:25  D
345  1.342519e+00  3.891359e-03  000:08:13  000:01:23  D
346  1.346410e+00  3.891359e-03  000:08:14  000:01:22  D
347  1.350301e+00  3.891359e-03  000:08:15  000:01:20  D
348  1.354193e+00  3.891359e-03  000:08:17  000:01:19  D
349  1.358084e+00  3.891359e-03  000:08:18  000:01:18  D
350  1.361976e+00  3.891359e-03  000:08:19  000:01:16  FD
351  1.365867e+00  3.891359e-03  000:08:21  000:01:15  D
352  1.369758e+00  3.891359e-03  000:08:22  000:01:13  D
353  1.373650e+00  3.891359e-03  000:08:24  000:01:12  D
354  1.377541e+00  3.891359e-03  000:08:26  000:01:10  D
355  1.381432e+00  3.891359e-03  000:08:27  000:01:09  D
356  1.385324e+00  3.891359e-03  000:08:29  000:01:08  D
357  1.389215e+00  3.891359e-03  000:08:30  000:01:06  D
358  1.393106e+00  3.891359e-03  000:08:32  000:01:05  D
359  1.396998e+00  3.891359e-03  000:08:33  000:01:03  D
360  1.400889e+00  3.891359e-03  000:08:34  000:01:02  FD
361  1.404780e+00  3.891359e-03  000:08:36  000:01:01  D
362  1.408672e+00  3.891359e-03  000:08:37  000:00:59  D
363  1.412563e+00  3.891359e-03  000:08:39  000:00:58  D
364  1.416455e+00  3.891359e-03  000:08:40  000:00:56  D
365  1.420346e+00  3.891359e-03  000:08:42  000:00:55  D
366  1.424237e+00  3.891359e-03  000:08:43  000:00:53  D
367  1.428129e+00  3.891359e-03  000:08:44  000:00:52  D
368  1.432020e+00  3.891359e-03  000:08:46  000:00:51  D
369  1.435911e+00  3.891359e-03  000:08:47  000:00:49  D
370  1.439803e+00  3.891359e-03  000:08:49  000:00:48  FD
371  1.443694e+00  3.891359e-03  000:08:50  000:00:46  D
372  1.447585e+00  3.891359e-03  000:08:51  000:00:45  D
373  1.451477e+00  3.891359e-03  000:08:53  000:00:43  D
374  1.455368e+00  3.891359e-03  000:08:54  000:00:42  D
375  1.459259e+00  3.891359e-03  000:08:56  000:00:40  D
376  1.463151e+00  3.891359e-03  000:08:57  000:00:39  D
377  1.467042e+00  3.891359e-03  000:08:59  000:00:38  D
378  1.470934e+00  3.891359e-03  000:09:00  000:00:36  D
379  1.474825e+00  3.891359e-03  000:09:01  000:00:35  D
380  1.478716e+00  3.891359e-03  000:09:03  000:00:33  FD
381  1.482608e+00  3.891359e-03  000:09:04  000:00:32  D
382  1.486499e+00  3.891359e-03  000:09:06  000:00:30  D
383  1.490390e+00  3.891359e-03  000:09:07  000:00:29  D
384  1.494282e+00  3.891359e-03  000:09:08  000:00:28  D
385  1.498173e+00  3.891359e-03  000:09:10  000:00:26  D
386  1.502064e+00  3.891359e-03  000:09:11  000:00:25  D
387  1.505956e+00  3.891359e-03  000:09:13  000:00:23  D
388  1.509847e+00  3.891359e-03  000:09:14  000:00:22  D
389  1.513738e+00  3.891359e-03  000:09:16  000:00:20  D
390  1.517630e+00  3.891359e-03  000:09:17  000:00:19  FD
391  1.521521e+00  3.891359e-03  000:09:18  000:00:18  D
392  1.525413e+00  3.891359e-03  000:09:20  000:00:16  D
393  1.529304e+00  3.891359e-03  000:09:21  000:00:15  D
394  1.533195e+00  3.891359e-03  000:09:23  000:00:13  D
395  1.537087e+00  3.891359e-03  000:09:24  000:00:12  D
396  1.540978e+00  3.891359e-03  000:09:26  000:00:10  D
397  1.544869e+00  3.891359e-03  000:09:27  000:00:09  D
398  1.548761e+00  3.891359e-03  000:09:29  000:00:08  D
399  1.552652e+00  3.891359e-03  000:09:30  000:00:06  D
400  1.556543e+00  3.891359e-03  000:09:32  000:00:05  FD
401  1.560435e+00  3.891359e-03  000:09:33  000:00:03  D
402  1.564326e+00  3.891359e-03  000:09:35  000:00:02  D
403  1.568218e+00  3.891359e-03  000:09:36  000:00:00  D
404  1.570796e+00  2.578819e-03  000:09:37  000:00:00  D

Normal finish, maximum time reached: 1.570796

* Timers (h:m:s):
-----------------
Migrate global-scope data                                                   : 0:0:0
Total runtime                                                               : 0:9:42

[Partition 0][Node 0] End of program
\$ cp diag diag.6M
\$ ./charmrun +p36 Main/inciter -v -c slot_cyl.q -i unitcube_01_48M.exo

Running on 36 processors:  Main/inciter -v -c slot_cyl.q -i unitcube_01_48M.exo
charmrun>  /usr/bin/setarch x86_64 -R  mpirun -np 36  Main/inciter -v -c slot_cyl.q -i unitcube_01_48M.exo
Charm++> Running on MPI version: 3.1
Charm++> Running in non-SMP mode: numPes 36
Converse/Charm++ Commit ID:
CharmLB> Load balancer assumes all CPUs are same.
Charm++> Running on 1 unique compute nodes (36-way SMP).
Charm++> cpu topology info is gathered in 0.022 seconds.

,::,`                                                            `.
.;;;'';;;:                                                          ;;#
;;;@+   +;;;  ;;;;;,   ;;;;. ;;;;;, ;;;;      ;;;;   `;;;;;;:        ;;;
:;;@`     :;;' .;;;@,    ,;@, ,;;;@: .;;;'     .;+;. ;;;@#:';;;      ;;;;'
;;;#       ;;;: ;;;'      ;:   ;;;'   ;;;;;     ;#  ;;;@     ;;;     ;+;;'
.;;+        ;;;# ;;;'      ;:   ;;;'   ;#;;;`    ;#  ;;@      `;;+   .;#;;;.
;;;#        :;;' ;;;'      ;:   ;;;'   ;# ;;;    ;# ;;;@       ;;;   ;# ;;;+
;;;#        .;;; ;;;'      ;:   ;;;'   ;# ,;;;   ;# ;;;#       ;;;:  ;@  ;;;
;;;#        .;;' ;;;'      ;:   ;;;'   ;#  ;;;;  ;# ;;;'       ;;;+ ;',  ;;;@
;;;+        ,;;+ ;;;'      ;:   ;;;'   ;#   ;;;' ;# ;;;'       ;;;' ;':::;;;;
`;;;        ;;;@ ;;;'      ;:   ;;;'   ;#    ;;;';# ;;;@       ;;;:,;+++++;;;'
;;;;       ;;;@ ;;;#     .;.   ;;;'   ;#     ;;;;# `;;+       ;;# ;#     ;;;'
.;;;      :;;@  ,;;+     ;+    ;;;'   ;#      ;;;#  ;;;      ;;;@ ;@      ;;;.
';;;    ;;;@,   ;;;;``.;;@    ;;;'   ;+      .;;#   ;;;    :;;@ ;;;      ;;;+
:;;;;;;;+@`     ';;;;;'@    ;;;;;, ;;;;      ;;+    +;;;;;;#@ ;;;;.   .;;;;;;
.;;#@'         `#@@@:     ;::::; ;::::      ;@      '@@@+   ;:::;    ;::::::
:;;;;;;.     .___              .__  __
.;@+@';;;;;;' |   | ____   ____ |__|/  |_  ___________
`     '#''@` |   |/    \_/ ___\|  \   __\/ __ \_  __ \
|   |   |  \  \___|  ||  | \  ___/|  | \/
|___|___|  /\___  >__||__|  \___  >__|
\/     \/              \/

< ENVIRONMENT >
------ o ------

* Build environment:
--------------------
Hostname                       : lagrange
Executable                     : inciter
Version                        : 0.1 (C16015)
Revision SHA1                  : Quinoa_v0.1-914-g40abfa98
CMake build type               : RELEASE
Asserts                        : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
Exception trace                : off (turn on: CMAKE_BUILD_TYPE=DEBUG)
MPI C++ wrapper                : /usr/bin/mpicxx
Underlying C++ compiler        : /usr/bin/g++
Build date                     : Sun Jun  4 13:51:45 MDT 2017

* Run-time environment:
-----------------------
Date, time                     : Mon Jun  5 07:18:32 2017
Work directory                 : /home/jbakosi/code/quinoa/build/gnu
Executable (rel. to work dir)  : Main/inciter
Command line arguments         : '-v -c slot_cyl.q -i unitcube_01_48M.exo'
Output                         : verbose (quiet: omit -v)
Control file                   : slot_cyl.q
Parsed control file            : success

< FACTORY >
---- o ----

* Unknowns data layout (CMake: FIELD_DATA_LAYOUT):
--------------------------------------------------
unknown-major

* Registered partial differential equations:
--------------------------------------------
Unique equation types          : 2
With all policy combinations   : 12

Legend: equation name : supported policies

Policy codes:
* h: physics configuration:
L - Laplace
N - Navier-Stokes
E - Euler
* r: problem:
U - User-defined
S - Shear-diffusion
D - Dirichlet & Neumann
V - Vortical flow
V - Nonlinear energy growth
V - Rayleigh-Taylor
Z - Zalesak's slotted cylinder

Compressible flow              : h:EN, r:UV

< PROBLEM >
---- o ----

* Title: Zalesak's slotted cylinder
-----------------------------------

* Partial differential equations integrated (1):
------------------------------------------------
< Transport >
problem                        : Zalesak's slotted cylinder
start offset in unknowns array : 0
number of components           : 1

* Discretization parameters:
----------------------------
Number of time steps           : 18446744073709551615
Start time                     : 0
Terminate time                 : 1.5708
CFL coefficient                : 0.5
Mass diffusion coeff           : 1

* Output filenames:
-------------------
Field                          : out.<chareid>
Diagnostics                    : diag

* Output intervals:
-------------------
TTY                            : 1
Field                          : 10
Diagnostics                    : 1

Quinoa> Reading side sets ... done
Quinoa> Creating linear system mergers
Quinoa> Creating particle writers
Quinoa> Creating partitioners and reading mesh graph ... done

* Input mesh graph statistics:
------------------------------
Number of tetrahedra           : 48000000
Number of nodes                : 8120601

--------------------
Virtualization [0.0...1.0]     : 0
Load (number of tetrahedra)    : 48000000
Number of processing elements  : 36
Number of work units           : 36 (35*1333333+1333345)

* Initial mesh partitioning:
----------------------------
Mesh partitioning algorithm    : recursive coordinate bisection

Quinoa> Mesh read time: 1.933377 sec
Quinoa> Partitioning and distributing mesh ... ZOLTAN Load balancing method = 3 (RCB)
Build configuration:

ZOLTAN_ID_TYPE: unsigned int (4 bytes)
ZOLTAN_GNO_TYPE: ssize_t, (8 bytes)
MPI_Datatype for ZOLTAN_ID_TYPE: MPI_UNSIGNED
MPI_Datatype for ZOLTAN_GNO_TYPE: MPI_LONG

ZOLTAN Parameter IMBALANCE_TOL[0] = 1.100000
ZOLTAN Parameter AUTO_MIGRATE = FALSE
ZOLTAN Parameter MIGRATE_ONLY_PROC_CHANGES = 1
ZOLTAN Parameter OBJ_WEIGHT_DIM = 0
ZOLTAN Parameter EDGE_WEIGHT_DIM = 0
ZOLTAN Parameter DEBUG_LEVEL = 1
ZOLTAN Parameter DEBUG_PROCESSOR = 0
ZOLTAN Parameter DETERMINISTIC = TRUE
ZOLTAN Parameter TIMER = 1 (wall)
ZOLTAN Parameter NUM_GID_ENTRIES = 2
ZOLTAN Parameter NUM_LID_ENTRIES = 2
ZOLTAN Parameter RETURN_LISTS = PARTITION ASSIGNMENTS
ZOLTAN Parameter NUM_GLOBAL_PARTS = 36
ZOLTAN Parameter NUM_LOCAL_PARTS = -1
ZOLTAN Parameter REMAP = 1
ZOLTAN Parameter SEED = 123456789 (123456789)
ZOLTAN Parameter LB_APPROACH = repartition
ZOLTAN Parameter RCB_OVERALLOC = 1.200000
ZOLTAN Parameter RCB_REUSE = 0
ZOLTAN Parameter CHECK_GEOM = 1
ZOLTAN Parameter RCB_OUTPUT_LEVEL = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter RCB_LOCK_DIRECTIONS = 0
ZOLTAN Parameter RCB_SET_DIRECTIONS = 0
ZOLTAN Parameter RCB_RECTILINEAR_BLOCKS = 0
ZOLTAN Parameter OBJ_WEIGHTS_COMPARABLE = 0
ZOLTAN Parameter RCB_MULTICRITERIA_NORM = 1
ZOLTAN Parameter RCB_MAX_ASPECT_RATIO = 10.000000
ZOLTAN Parameter AVERAGE_CUTS = 0
ZOLTAN Parameter RANDOM_PIVOTS = 0
ZOLTAN Parameter RCB_RECOMPUTE_BOX = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 0.000000
ZOLTAN Parameter FINAL_OUTPUT = 0
ZOLTAN Parameter KEEP_CUTS = 0
ZOLTAN Parameter REDUCE_DIMENSIONS = 0
ZOLTAN Parameter DEGENERATE_RATIO = 10.000000
done
Quinoa> Reordering mesh ... done
Quinoa> Creating workers
Quinoa> Reading mesh node coordinates, computing nodal volumes
Quinoa> Linear system communication cost: avg = 0.044557, std = 0.026130
Quinoa> Mesh statistics: min/max/avg(edgelength) = 0.005000 / 0.008660 / 0.006397
Quinoa> Mesh statistics: min/max/avg(V^{1/3}) = 0.002752 / 0.002752 / 0.002752
Quinoa> Computing row IDs, querying BCs, outputting mesh done
Quinoa> Setting and outputting ICs, computing initial dt, computing LHS ... done
Quinoa> Starting time stepping ...

* Time integration: Unstructured-mesh PDE solver testbed
--------------------------------------------------------
Legend: it - iteration count
t - time
dt - time step size
ETE - estimated time elapsed (h:m:s)
ETA - estimated time for accomplishment (h:m:s)
out - output-saved flags (F: field, D: diagnostics)

it             t            dt        ETE        ETA   out
---------------------------------------------------------------
1  1.945679e-03  1.945679e-03  000:00:10  002:23:17  D
2  3.891359e-03  1.945679e-03  000:00:22  002:30:35  D
3  5.837038e-03  1.945679e-03  000:00:35  002:38:17  D
4  7.782717e-03  1.945679e-03  000:00:46  002:35:40  D
5  9.728396e-03  1.945679e-03  000:00:57  002:35:01  D
6  1.167408e-02  1.945679e-03  000:01:08  002:33:26  D
7  1.361976e-02  1.945679e-03  000:01:19  002:31:22  D
8  1.556543e-02  1.945679e-03  000:01:31  002:31:55  D
9  1.751111e-02  1.945679e-03  000:01:43  002:32:51  D
10  1.945679e-02  1.945679e-03  000:01:54  002:32:29  FD
11  2.140247e-02  1.945679e-03  000:02:05  002:31:21  D
12  2.334815e-02  1.945679e-03  000:02:17  002:31:28  D
13  2.529383e-02  1.945679e-03  000:02:29  002:31:47  D
14  2.723951e-02  1.945679e-03  000:02:39  002:30:31  D
15  2.918519e-02  1.945679e-03  000:02:51  002:30:38  D
16  3.113087e-02  1.945679e-03  000:03:01  002:29:44  D
17  3.307655e-02  1.945679e-03  000:03:12  002:29:09  D
18  3.502223e-02  1.945679e-03  000:03:23  002:28:59  D
19  3.696791e-02  1.945679e-03  000:03:34  002:28:26  D
20  3.891359e-02  1.945679e-03  000:03:46  002:28:31  FD
21  4.085927e-02  1.945679e-03  000:03:57  002:28:09  D
22  4.280494e-02  1.945679e-03  000:04:08  002:27:54  D
23  4.475062e-02  1.945679e-03  000:04:19  002:27:25  D
24  4.669630e-02  1.945679e-03  000:04:30  002:26:55  D
25  4.864198e-02  1.945679e-03  000:04:41  002:26:41  D
26  5.058766e-02  1.945679e-03  000:04:52  002:26:29  D
27  5.253334e-02  1.945679e-03  000:05:03  002:26:06  D
28  5.447902e-02  1.945679e-03  000:05:13  002:25:36  D
29  5.642470e-02  1.945679e-03  000:05:24  002:25:20  D
30  5.837038e-02  1.945679e-03  000:05:35  002:25:03  FD
31  6.031606e-02  1.945679e-03  000:05:48  002:25:21  D
32  6.226174e-02  1.945679e-03  000:05:58  002:24:56  D
33  6.420742e-02  1.945679e-03  000:06:10  002:24:46  D
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263  5.117137e-01  1.945679e-03  000:49:34  001:42:37  D
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734  1.428129e+00  1.945679e-03  002:19:00  000:13:53  D
735  1.430074e+00  1.945679e-03  002:19:11  000:13:41  D
736  1.432020e+00  1.945679e-03  002:19:22  000:13:30  D
737  1.433966e+00  1.945679e-03  002:19:34  000:13:19  D
738  1.435911e+00  1.945679e-03  002:19:46  000:13:07  D
739  1.437857e+00  1.945679e-03  002:19:56  000:12:56  D
740  1.439803e+00  1.945679e-03  002:20:08  000:12:45  FD
741  1.441748e+00  1.945679e-03  002:20:19  000:12:33  D
742  1.443694e+00  1.945679e-03  002:20:30  000:12:22  D
743  1.445640e+00  1.945679e-03  002:20:41  000:12:10  D
744  1.447585e+00  1.945679e-03  002:20:52  000:11:59  D
745  1.449531e+00  1.945679e-03  002:21:03  000:11:48  D
746  1.451477e+00  1.945679e-03  002:21:15  000:11:36  D
747  1.453422e+00  1.945679e-03  002:21:27  000:11:25  D
748  1.455368e+00  1.945679e-03  002:21:38  000:11:14  D
749  1.457314e+00  1.945679e-03  002:21:49  000:11:02  D
750  1.459259e+00  1.945679e-03  002:22:00  000:10:51  FD
751  1.461205e+00  1.945679e-03  002:22:11  000:10:39  D
752  1.463151e+00  1.945679e-03  002:22:22  000:10:28  D
753  1.465097e+00  1.945679e-03  002:22:33  000:10:17  D
754  1.467042e+00  1.945679e-03  002:22:44  000:10:05  D
755  1.468988e+00  1.945679e-03  002:22:55  000:09:54  D
756  1.470934e+00  1.945679e-03  002:23:06  000:09:42  D
757  1.472879e+00  1.945679e-03  002:23:17  000:09:31  D
758  1.474825e+00  1.945679e-03  002:23:28  000:09:20  D
759  1.476771e+00  1.945679e-03  002:23:39  000:09:08  D
760  1.478716e+00  1.945679e-03  002:23:50  000:08:57  FD
761  1.480662e+00  1.945679e-03  002:24:01  000:08:46  D
762  1.482608e+00  1.945679e-03  002:24:12  000:08:34  D
763  1.484553e+00  1.945679e-03  002:24:23  000:08:23  D
764  1.486499e+00  1.945679e-03  002:24:35  000:08:11  D
765  1.488445e+00  1.945679e-03  002:24:47  000:08:00  D
766  1.490390e+00  1.945679e-03  002:24:57  000:07:49  D
767  1.492336e+00  1.945679e-03  002:25:09  000:07:37  D
768  1.494282e+00  1.945679e-03  002:25:20  000:07:26  D
769  1.496227e+00  1.945679e-03  002:25:31  000:07:15  D
770  1.498173e+00  1.945679e-03  002:25:43  000:07:03  FD
771  1.500119e+00  1.945679e-03  002:25:55  000:06:52  D
772  1.502064e+00  1.945679e-03  002:26:06  000:06:41  D
773  1.504010e+00  1.945679e-03  002:26:17  000:06:29  D
774  1.505956e+00  1.945679e-03  002:26:30  000:06:18  D
775  1.507901e+00  1.945679e-03  002:26:43  000:06:07  D
776  1.509847e+00  1.945679e-03  002:26:55  000:05:55  D
777  1.511793e+00  1.945679e-03  002:27:07  000:05:44  D
778  1.513738e+00  1.945679e-03  002:27:22  000:05:33  D
779  1.515684e+00  1.945679e-03  002:27:35  000:05:21  D
780  1.517630e+00  1.945679e-03  002:27:47  000:05:10  FD
781  1.519576e+00  1.945679e-03  002:27:57  000:04:59  D
782  1.521521e+00  1.945679e-03  002:28:10  000:04:47  D
783  1.523467e+00  1.945679e-03  002:28:21  000:04:36  D
784  1.525413e+00  1.945679e-03  002:28:32  000:04:25  D
785  1.527358e+00  1.945679e-03  002:28:44  000:04:13  D
786  1.529304e+00  1.945679e-03  002:28:55  000:04:02  D
787  1.531250e+00  1.945679e-03  002:29:06  000:03:51  D
788  1.533195e+00  1.945679e-03  002:29:17  000:03:39  D
789  1.535141e+00  1.945679e-03  002:29:28  000:03:28  D
790  1.537087e+00  1.945679e-03  002:29:40  000:03:16  FD
791  1.539032e+00  1.945679e-03  002:29:51  000:03:05  D
792  1.540978e+00  1.945679e-03  002:30:02  000:02:54  D
793  1.542924e+00  1.945679e-03  002:30:13  000:02:42  D
794  1.544869e+00  1.945679e-03  002:30:24  000:02:31  D
795  1.546815e+00  1.945679e-03  002:30:35  000:02:20  D
796  1.548761e+00  1.945679e-03  002:30:47  000:02:08  D
797  1.550706e+00  1.945679e-03  002:30:58  000:01:57  D
798  1.552652e+00  1.945679e-03  002:31:10  000:01:45  D
799  1.554598e+00  1.945679e-03  002:31:22  000:01:34  D
800  1.556543e+00  1.945679e-03  002:31:33  000:01:23  FD
801  1.558489e+00  1.945679e-03  002:31:44  000:01:11  D
802  1.560435e+00  1.945679e-03  002:31:56  000:01:00  D
803  1.562380e+00  1.945679e-03  002:32:07  000:00:49  D
804  1.564326e+00  1.945679e-03  002:32:18  000:00:37  D
805  1.566272e+00  1.945679e-03  002:32:29  000:00:26  D
806  1.568218e+00  1.945679e-03  002:32:41  000:00:15  D
807  1.570163e+00  1.945679e-03  002:32:52  000:00:03  D
808  1.570796e+00  6.331393e-04  002:33:03  000:00:00  D

Normal finish, maximum time reached: 1.570796

* Timers (h:m:s):
-----------------
Migrate global-scope data                                                   : 0:0:0
Total runtime                                                               : 2:33:54

[Partition 0][Node 0] End of program
\$ cp diag diag.48M

## Example visualization

Example visualization of the 3D field data result with ParaView.

paraview out.0

## L2 errors

The following figure shows the time evolution of the error for three different meshes whose edge lengths are successively halved, which indicates approximately second-order convergence. See also https://github.com/quinoacomputing/quinoa-examples/tree/master/inciter/Hump for the diagnostics files.

Gnuplot commands to reproduce the above plot:

plot "diag.750K" u 2:4, "diag.6M" u 2:4, "diag.48M" u 2:4