CPPTRAJ: Trajectory Analysis. V16.00b
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| Date/time: 06/02/16 12:00:58
| Available memory: 1.231 GB

INPUT: Reading input from 'pt-analysis1.in'
  [parm ../../../tip3p/ff12sb/run1/build/noWAt.topo.hmr]
	Reading '../../../tip3p/ff12sb/run1/build/noWAt.topo.hmr' as Amber Topology
  [trajin ../ctraj.c0]
	Reading '../ctraj.c0' as Amber NetCDF
  [reference ../../../A-form.pdb [a-form]]
	Reading '../../../A-form.pdb' as PDB
	Setting active reference for distance-based masks: 'A-form.pdb'
  [rmsd rms_2_aform :1,2&!@H= ref [a-form] mass]
    RMSD: (:1,2&!@H*), reference is "[a-form]:1" (:1,2&!@H*), mass-weighted.
	Best-fit RMSD will be calculated, coords will be rotated and translated.
  [distance dist_sugar_ox :1@O2' :2@O4']
    DISTANCE: :1@O2' to :2@O4', center of mass.
  [distance dist_N3-O5p :1@N3 :1@O5']
    DISTANCE: :1@N3 to :1@O5', center of mass.
  [distance COM :2@N1,C6,H6,C5,H5,C4,N4,H41,H42,N3,C2,O2 :1@N1,C6,H6,C5,H5,C4,O4,N3,H3,C2,O2]
    DISTANCE: :2@N1,C6,H6,C5,H5,C4,N4,H41,H42,N3,C2,O2 to :1@N1,C6,H6,C5,H5,C4,O4,N3,H3,C2,O2, center of mass.
  [dihedral g1 :1@O5' :1@C5' :1@C4' :1@C3' type gamma]
    DIHEDRAL: [:1@O5']-[:1@C5']-[:1@C4']-[:1@C3']
              Output range is -180 to 180 degrees.
  [dihedral d1 :1@C5' :1@C4' :1@C3' :1@O3' type delta]
    DIHEDRAL: [:1@C5']-[:1@C4']-[:1@C3']-[:1@O3']
              Output range is -180 to 180 degrees.
  [dihedral e1 :1@C4' :1@C3' :1@O3' :2@P type epsilon]
    DIHEDRAL: [:1@C4']-[:1@C3']-[:1@O3']-[:2@P]
              Output range is -180 to 180 degrees.
  [dihedral z1 :1@C3' :1@O3' :2@P :2@O5' type zeta]
    DIHEDRAL: [:1@C3']-[:1@O3']-[:2@P]-[:2@O5']
              Output range is -180 to 180 degrees.
  [dihedral c1 :1@O4' :1@C1' :1@N1 :1@C2 type chi]
    DIHEDRAL: [:1@O4']-[:1@C1']-[:1@N1]-[:1@C2]
              Output range is -180 to 180 degrees.
  [dihedral a2 :1@O3' :2@P :2@O5' :2@C5' type alpha]
    DIHEDRAL: [:1@O3']-[:2@P]-[:2@O5']-[:2@C5']
              Output range is -180 to 180 degrees.
  [dihedral b2 :2@P :2@O5' :2@C5' :2@C4' type beta]
    DIHEDRAL: [:2@P]-[:2@O5']-[:2@C5']-[:2@C4']
              Output range is -180 to 180 degrees.
  [dihedral g2 :2@O5' :2@C5' :2@C4' :2@C3' type gamma]
    DIHEDRAL: [:2@O5']-[:2@C5']-[:2@C4']-[:2@C3']
              Output range is -180 to 180 degrees.
  [dihedral d2 :2@C5' :2@C4' :2@C3' :2@O3' type delta]
    DIHEDRAL: [:2@C5']-[:2@C4']-[:2@C3']-[:2@O3']
              Output range is -180 to 180 degrees.
  [dihedral c2 :2@O4' :2@C1' :2@N1 :2@C2 type chi]
    DIHEDRAL: [:2@O4']-[:2@C1']-[:2@N1]-[:2@C2]
              Output range is -180 to 180 degrees.
  [run]
---------- RUN BEGIN -------------------------------------------------

PARAMETER FILES (1 total):
 0: noWAt.topo.hmr, 60 atoms, 2 res, box: Orthogonal, 1 mol

INPUT TRAJECTORIES (1 total):
 0: 'ctraj.c0' is a NetCDF AMBER trajectory, Parm noWAt.topo.hmr (Orthogonal box) (reading 54936 of 54936)
  Coordinate processing will occur on 54936 frames.

REFERENCE FRAMES (1 total):
    0: [a-form]:1
	Active reference frame for distance-based masks is '[a-form]:1'

BEGIN TRAJECTORY PROCESSING:
.....................................................
ACTION SETUP FOR PARM 'noWAt.topo.hmr' (14 actions):
  0: [rmsd rms_2_aform :1,2&!@H= ref [a-form] mass]
	Target mask: [:1,2&!@H*](37)
	Reference mask: [:1,2&!@H*](37)
Warning: Coordinates are being rotated and box coordinates are present.
Warning: Unit cell vectors are NOT rotated; imaging will not be possible
Warning:  after the RMS-fit is performed.
  1: [distance dist_sugar_ox :1@O2' :2@O4']
	:1@O2' (1 atoms) to :2@O4' (1 atoms), imaged.
  2: [distance dist_N3-O5p :1@N3 :1@O5']
	:1@N3 (1 atoms) to :1@O5' (1 atoms), imaged.
  3: [distance COM :2@N1,C6,H6,C5,H5,C4,N4,H41,H42,N3,C2,O2 :1@N1,C6,H6,C5,H5,C4,O4,N3,H3,C2,O2]
	:2@N1,C6,H6,C5,H5,C4,N4,H41,H42,N3,C2,O2 (12 atoms) to :1@N1,C6,H6,C5,H5,C4,O4,N3,H3,C2,O2 (11 atoms), imaged.
  4: [dihedral g1 :1@O5' :1@C5' :1@C4' :1@C3' type gamma]
	 [:1@O5'](1) [:1@C5'](1) [:1@C4'](1) [:1@C3'](1)
  5: [dihedral d1 :1@C5' :1@C4' :1@C3' :1@O3' type delta]
	 [:1@C5'](1) [:1@C4'](1) [:1@C3'](1) [:1@O3'](1)
  6: [dihedral e1 :1@C4' :1@C3' :1@O3' :2@P type epsilon]
	 [:1@C4'](1) [:1@C3'](1) [:1@O3'](1) [:2@P](1)
  7: [dihedral z1 :1@C3' :1@O3' :2@P :2@O5' type zeta]
	 [:1@C3'](1) [:1@O3'](1) [:2@P](1) [:2@O5'](1)
  8: [dihedral c1 :1@O4' :1@C1' :1@N1 :1@C2 type chi]
	 [:1@O4'](1) [:1@C1'](1) [:1@N1](1) [:1@C2](1)
  9: [dihedral a2 :1@O3' :2@P :2@O5' :2@C5' type alpha]
	 [:1@O3'](1) [:2@P](1) [:2@O5'](1) [:2@C5'](1)
  10: [dihedral b2 :2@P :2@O5' :2@C5' :2@C4' type beta]
	 [:2@P](1) [:2@O5'](1) [:2@C5'](1) [:2@C4'](1)
  11: [dihedral g2 :2@O5' :2@C5' :2@C4' :2@C3' type gamma]
	 [:2@O5'](1) [:2@C5'](1) [:2@C4'](1) [:2@C3'](1)
  12: [dihedral d2 :2@C5' :2@C4' :2@C3' :2@O3' type delta]
	 [:2@C5'](1) [:2@C4'](1) [:2@C3'](1) [:2@O3'](1)
  13: [dihedral c2 :2@O4' :2@C1' :2@N1 :2@C2 type chi]
	 [:2@O4'](1) [:2@C1'](1) [:2@N1](1) [:2@C2](1)
----- ctraj.c0 (1-54936, 1) -----
 0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Complete.

Read 54936 frames and processed 54936 frames.
TIME: Avg. throughput= 125368.8426 frames / second.

ACTION OUTPUT:

DATASETS (14 total):
	rms_2_aform "rms_2_aform" (double, rms), size is 54936
	dist_sugar_ox "dist_sugar_ox" (double, distance), size is 54936
	dist_N3-O5p "dist_N3-O5p" (double, distance), size is 54936
	COM "COM" (double, distance), size is 54936
	g1 "g1" (double, torsion(gamma)), size is 54936
	d1 "d1" (double, torsion(delta)), size is 54936
	e1 "e1" (double, torsion(epsilon)), size is 54936
	z1 "z1" (double, torsion(zeta)), size is 54936
	c1 "c1" (double, torsion(chin)), size is 54936
	a2 "a2" (double, torsion(alpha)), size is 54936
	b2 "b2" (double, torsion(beta)), size is 54936
	g2 "g2" (double, torsion(gamma)), size is 54936
	d2 "d2" (double, torsion(delta)), size is 54936
	c2 "c2" (double, torsion(chin)), size is 54936

RUN TIMING:
TIME:		Init               : 0.0001 s (  0.01%)
TIME:		Trajectory Process : 0.4382 s ( 99.97%)
TIME:		Action Post        : 0.0000 s (  0.00%)
TIME:		Analysis           : 0.0000 s (  0.00%)
TIME:		Data File Write    : 0.0000 s (  0.01%)
TIME:		Other              : 0.0000 s (  0.00%)
TIME:	Run Total 0.4383 s
---------- RUN END ---------------------------------------------------
  [avg rms_2_aform out avg-rmsd-all.dat]
    AVERAGE: Calculating average of 1 data sets.
	Data set base name 'AVERAGE_00016'
	Output to to 'avg-rmsd-all.dat'
  [hist rms_2_aform,0,5,0.1 out rmsd-hist.dat name RMSD norm]
	Hist: rmsd-hist.dat: Set up for 1 dimensions using the following datasets:
	[ rms_2_aform ]
	norm: Sum over bins will be normalized to 1.0.
  [hist COM,0,10,0.1 out COM-hist.dat name CoM norm]
	Hist: COM-hist.dat: Set up for 1 dimensions using the following datasets:
	[ COM ]
	norm: Sum over bins will be normalized to 1.0.
  [hist dist_sugar_ox,0,10,0.1 out distO2O4-hist.dat norm]
	Hist: distO2O4-hist.dat: Set up for 1 dimensions using the following datasets:
	[ dist_sugar_ox ]
	norm: Sum over bins will be normalized to 1.0.
  [hist dist_N3-O5p,0,10,0.1 out distN3-O5p-hist.dat norm]
	Hist: distN3-O5p-hist.dat: Set up for 1 dimensions using the following datasets:
	[ dist_N3-O5p ]
	norm: Sum over bins will be normalized to 1.0.
  [hist rms_2_aform,0,5,0.1 dist_sugar_ox,0,10,0.1 out 2dhist_rms-dist.gnu norm]
	Hist: 2dhist_rms-dist.gnu: Set up for 2 dimensions using the following datasets:
	[ rms_2_aform dist_sugar_ox ]
	norm: Sum over bins will be normalized to 1.0.
  [hist g1,-180,180,1 out dihed_g1-hist.dat name gamma_1 norm]
	Hist: dihed_g1-hist.dat: Set up for 1 dimensions using the following datasets:
	[ g1 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist d1,-180,180,1 out dihed_d1-hist.dat name delta_1 norm]
	Hist: dihed_d1-hist.dat: Set up for 1 dimensions using the following datasets:
	[ d1 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist e1,-180,180,1 out dihed_e1-hist.dat name epsilon_1 norm]
	Hist: dihed_e1-hist.dat: Set up for 1 dimensions using the following datasets:
	[ e1 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist z1,-180,180,1 out dihed_z1-hist.dat name zeta_1 norm]
	Hist: dihed_z1-hist.dat: Set up for 1 dimensions using the following datasets:
	[ z1 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist c1,-180,180,1 out dihed_c1-hist.dat name chi_1 norm]
	Hist: dihed_c1-hist.dat: Set up for 1 dimensions using the following datasets:
	[ c1 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist a2,-180,180,1 out dihed_a2-hist.dat name alpha_2 norm]
	Hist: dihed_a2-hist.dat: Set up for 1 dimensions using the following datasets:
	[ a2 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist b2,-180,180,1 out dihed_b2-hist.dat name beta_2 norm]
	Hist: dihed_b2-hist.dat: Set up for 1 dimensions using the following datasets:
	[ b2 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist g2,-180,180,1 out dihed_g2-hist.dat name gamma_2 norm]
	Hist: dihed_g2-hist.dat: Set up for 1 dimensions using the following datasets:
	[ g2 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist d2,-180,180,1 out dihed_d2-hist.dat name delta_2 norm]
	Hist: dihed_d2-hist.dat: Set up for 1 dimensions using the following datasets:
	[ d2 ]
	norm: Sum over bins will be normalized to 1.0.
  [hist c2,-180,180,1 out dihed_c2-hist.dat name chi_2 norm]
	Hist: dihed_c2-hist.dat: Set up for 1 dimensions using the following datasets:
	[ c2 ]
	norm: Sum over bins will be normalized to 1.0.
---------- RUN BEGIN -------------------------------------------------

PARAMETER FILES (1 total):
 0: noWAt.topo.hmr, 60 atoms, 2 res, box: Orthogonal, 1 mol

INPUT TRAJECTORIES (1 total):
 0: 'ctraj.c0' is a NetCDF AMBER trajectory, Parm noWAt.topo.hmr (Orthogonal box) (reading 54936 of 54936)
  Coordinate processing will occur on 54936 frames.

REFERENCE FRAMES (1 total):
    0: [a-form]:1
	Active reference frame for distance-based masks is '[a-form]:1'

BEGIN TRAJECTORY PROCESSING:
----- ctraj.c0 (1-54936, 1) -----
 0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Complete.

Read 54936 frames and processed 54936 frames.
TIME: Avg. throughput= 604083.9665 frames / second.

ACTION OUTPUT:

ANALYSIS: Performing 16 analyses:
  0: [avg rms_2_aform out avg-rmsd-all.dat]
	1: rms_2_aform
  1: [hist rms_2_aform,0,5,0.1 out rmsd-hist.dat name RMSD norm]
		Calculating bins from min=0 max=5 step=0.1.
	Dim rms_2_aform: 0.000000->5.000000, step 0.100000, 50 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 50
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  2: [hist COM,0,10,0.1 out COM-hist.dat name CoM norm]
		Calculating bins from min=0 max=10 step=0.1.
	Dim COM: 0.000000->10.000000, step 0.100000, 100 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 100
	Warning: Frame 12 Coordinates out of bounds (-1)
	Warning: Frame 469 Coordinates out of bounds (-1)
	Warning: Frame 1964 Coordinates out of bounds (-1)
	Warning: Frame 2014 Coordinates out of bounds (-1)
	Warning: Frame 2036 Coordinates out of bounds (-1)
	Warning: Frame 2139 Coordinates out of bounds (-1)
	Warning: Frame 2245 Coordinates out of bounds (-1)
	Warning: Frame 2487 Coordinates out of bounds (-1)
	Warning: Frame 2549 Coordinates out of bounds (-1)
	Warning: Frame 3306 Coordinates out of bounds (-1)
	Warning: Frame 3425 Coordinates out of bounds (-1)
	Warning: Frame 3744 Coordinates out of bounds (-1)
	Warning: Frame 4054 Coordinates out of bounds (-1)
	Warning: Frame 4168 Coordinates out of bounds (-1)
	Warning: Frame 4526 Coordinates out of bounds (-1)
	Warning: Frame 4984 Coordinates out of bounds (-1)
	Warning: Frame 5049 Coordinates out of bounds (-1)
	Warning: Frame 5497 Coordinates out of bounds (-1)
	Warning: Frame 5498 Coordinates out of bounds (-1)
	Warning: Frame 6409 Coordinates out of bounds (-1)
	Warning: Frame 6439 Coordinates out of bounds (-1)
	Warning: Frame 6692 Coordinates out of bounds (-1)
	Warning: Frame 6734 Coordinates out of bounds (-1)
	Warning: Frame 7113 Coordinates out of bounds (-1)
	Warning: Frame 7655 Coordinates out of bounds (-1)
	Warning: Frame 7960 Coordinates out of bounds (-1)
	Warning: Frame 8064 Coordinates out of bounds (-1)
	Warning: Frame 8992 Coordinates out of bounds (-1)
	Warning: Frame 9342 Coordinates out of bounds (-1)
	Warning: Frame 9343 Coordinates out of bounds (-1)
	Warning: Frame 10617 Coordinates out of bounds (-1)
	Warning: Frame 11946 Coordinates out of bounds (-1)
	Warning: Frame 11947 Coordinates out of bounds (-1)
	Warning: Frame 12591 Coordinates out of bounds (-1)
	Warning: Frame 12804 Coordinates out of bounds (-1)
	Warning: Frame 12826 Coordinates out of bounds (-1)
	Warning: Frame 14053 Coordinates out of bounds (-1)
	Warning: Frame 14210 Coordinates out of bounds (-1)
	Warning: Frame 14877 Coordinates out of bounds (-1)
	Warning: Frame 16299 Coordinates out of bounds (-1)
	Warning: Frame 16651 Coordinates out of bounds (-1)
	Warning: Frame 16913 Coordinates out of bounds (-1)
	Warning: Frame 17122 Coordinates out of bounds (-1)
	Warning: Frame 17923 Coordinates out of bounds (-1)
	Warning: Frame 18137 Coordinates out of bounds (-1)
	Warning: Frame 18138 Coordinates out of bounds (-1)
	Warning: Frame 18140 Coordinates out of bounds (-1)
	Warning: Frame 18823 Coordinates out of bounds (-1)
	Warning: Frame 18869 Coordinates out of bounds (-1)
	Warning: Frame 19128 Coordinates out of bounds (-1)
	Warning: Frame 19129 Coordinates out of bounds (-1)
	Warning: Frame 19130 Coordinates out of bounds (-1)
	Warning: Frame 19135 Coordinates out of bounds (-1)
	Warning: Frame 19424 Coordinates out of bounds (-1)
	Warning: Frame 20614 Coordinates out of bounds (-1)
	Warning: Frame 20744 Coordinates out of bounds (-1)
	Warning: Frame 21458 Coordinates out of bounds (-1)
	Warning: Frame 21770 Coordinates out of bounds (-1)
	Warning: Frame 21963 Coordinates out of bounds (-1)
	Warning: Frame 22090 Coordinates out of bounds (-1)
	Warning: Frame 22225 Coordinates out of bounds (-1)
	Warning: Frame 22230 Coordinates out of bounds (-1)
	Warning: Frame 23693 Coordinates out of bounds (-1)
	Warning: Frame 24023 Coordinates out of bounds (-1)
	Warning: Frame 24221 Coordinates out of bounds (-1)
	Warning: Frame 24222 Coordinates out of bounds (-1)
	Warning: Frame 25029 Coordinates out of bounds (-1)
	Warning: Frame 25936 Coordinates out of bounds (-1)
	Warning: Frame 26921 Coordinates out of bounds (-1)
	Warning: Frame 27790 Coordinates out of bounds (-1)
	Warning: Frame 29003 Coordinates out of bounds (-1)
	Warning: Frame 29069 Coordinates out of bounds (-1)
	Warning: Frame 29391 Coordinates out of bounds (-1)
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	Warning: Frame 30297 Coordinates out of bounds (-1)
	Warning: Frame 30303 Coordinates out of bounds (-1)
	Warning: Frame 31319 Coordinates out of bounds (-1)
	Warning: Frame 31923 Coordinates out of bounds (-1)
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	Warning: Frame 33268 Coordinates out of bounds (-1)
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	Warning: Frame 33270 Coordinates out of bounds (-1)
	Warning: Frame 33297 Coordinates out of bounds (-1)
	Warning: Frame 33515 Coordinates out of bounds (-1)
	Warning: Frame 35665 Coordinates out of bounds (-1)
	Warning: Frame 36192 Coordinates out of bounds (-1)
	Warning: Frame 36193 Coordinates out of bounds (-1)
	Warning: Frame 36373 Coordinates out of bounds (-1)
	Warning: Frame 36382 Coordinates out of bounds (-1)
	Warning: Frame 36883 Coordinates out of bounds (-1)
	Warning: Frame 37050 Coordinates out of bounds (-1)
	Warning: Frame 38137 Coordinates out of bounds (-1)
	Warning: Frame 38138 Coordinates out of bounds (-1)
	Warning: Frame 38267 Coordinates out of bounds (-1)
	Warning: Frame 38312 Coordinates out of bounds (-1)
	Warning: Frame 39513 Coordinates out of bounds (-1)
	Warning: Frame 41007 Coordinates out of bounds (-1)
	Warning: Frame 41214 Coordinates out of bounds (-1)
	Warning: Frame 42038 Coordinates out of bounds (-1)
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	Warning: Frame 42166 Coordinates out of bounds (-1)
	Warning: Frame 42330 Coordinates out of bounds (-1)
	Warning: Frame 42939 Coordinates out of bounds (-1)
	Warning: Frame 43466 Coordinates out of bounds (-1)
	Warning: Frame 43683 Coordinates out of bounds (-1)
	Warning: Frame 44151 Coordinates out of bounds (-1)
	Warning: Frame 44232 Coordinates out of bounds (-1)
	Warning: Frame 44234 Coordinates out of bounds (-1)
	Warning: Frame 44235 Coordinates out of bounds (-1)
	Warning: Frame 44237 Coordinates out of bounds (-1)
	Warning: Frame 44604 Coordinates out of bounds (-1)
	Warning: Frame 44607 Coordinates out of bounds (-1)
	Warning: Frame 44759 Coordinates out of bounds (-1)
	Warning: Frame 44801 Coordinates out of bounds (-1)
	Warning: Frame 44885 Coordinates out of bounds (-1)
	Warning: Frame 46515 Coordinates out of bounds (-1)
	Warning: Frame 46685 Coordinates out of bounds (-1)
	Warning: Frame 48313 Coordinates out of bounds (-1)
	Warning: Frame 48604 Coordinates out of bounds (-1)
	Warning: Frame 50436 Coordinates out of bounds (-1)
	Warning: Frame 51661 Coordinates out of bounds (-1)
	Warning: Frame 52402 Coordinates out of bounds (-1)
	Warning: Frame 52679 Coordinates out of bounds (-1)
	Warning: Frame 52680 Coordinates out of bounds (-1)
	Warning: Frame 53632 Coordinates out of bounds (-1)
	Warning: Frame 53634 Coordinates out of bounds (-1)
	Warning: Frame 54110 Coordinates out of bounds (-1)
	Warning: Frame 54398 Coordinates out of bounds (-1)
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54807
  3: [hist dist_sugar_ox,0,10,0.1 out distO2O4-hist.dat norm]
		Calculating bins from min=0 max=10 step=0.1.
	Dim dist_sugar_ox: 0.000000->10.000000, step 0.100000, 100 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 100
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  4: [hist dist_N3-O5p,0,10,0.1 out distN3-O5p-hist.dat norm]
		Calculating bins from min=0 max=10 step=0.1.
	Dim dist_N3-O5p: 0.000000->10.000000, step 0.100000, 100 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 100
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  5: [hist rms_2_aform,0,5,0.1 dist_sugar_ox,0,10,0.1 out 2dhist_rms-dist.gnu norm]
		Calculating bins from min=0 max=5 step=0.1.
	Dim rms_2_aform: 0.000000->5.000000, step 0.100000, 50 bins.
		Calculating bins from min=0 max=10 step=0.1.
	Dim dist_sugar_ox: 0.000000->10.000000, step 0.100000, 100 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 5000
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  6: [hist g1,-180,180,1 out dihed_g1-hist.dat name gamma_1 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim g1: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  7: [hist d1,-180,180,1 out dihed_d1-hist.dat name delta_1 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim d1: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  8: [hist e1,-180,180,1 out dihed_e1-hist.dat name epsilon_1 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim e1: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  9: [hist z1,-180,180,1 out dihed_z1-hist.dat name zeta_1 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim z1: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  10: [hist c1,-180,180,1 out dihed_c1-hist.dat name chi_1 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim c1: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  11: [hist a2,-180,180,1 out dihed_a2-hist.dat name alpha_2 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim a2: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  12: [hist b2,-180,180,1 out dihed_b2-hist.dat name beta_2 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim b2: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  13: [hist g2,-180,180,1 out dihed_g2-hist.dat name gamma_2 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim g2: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  14: [hist d2,-180,180,1 out dihed_d2-hist.dat name delta_2 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim d2: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936
  15: [hist c2,-180,180,1 out dihed_c2-hist.dat name chi_2 norm]
		Calculating bins from min=-180 max=180 step=1.
	Dim c2: -180.000000->180.000000, step 1.000000, 360 bins.
	Hist: 54936 data points in each dimension.
	Hist: Allocating histogram, total bins = 360
	Histogram: Normalizing sum of bin populations to 1.0
	           Sum over all bins is 54936

TIME: Analyses took 0.0160 seconds.

DATASETS (36 total):
	rms_2_aform "rms_2_aform" (double, rms), size is 54936
	dist_sugar_ox "dist_sugar_ox" (double, distance), size is 54936
	dist_N3-O5p "dist_N3-O5p" (double, distance), size is 54936
	COM "COM" (double, distance), size is 54936
	g1 "g1" (double, torsion(gamma)), size is 54936
	d1 "d1" (double, torsion(delta)), size is 54936
	e1 "e1" (double, torsion(epsilon)), size is 54936
	z1 "z1" (double, torsion(zeta)), size is 54936
	c1 "c1" (double, torsion(chin)), size is 54936
	a2 "a2" (double, torsion(alpha)), size is 54936
	b2 "b2" (double, torsion(beta)), size is 54936
	g2 "g2" (double, torsion(gamma)), size is 54936
	d2 "d2" (double, torsion(delta)), size is 54936
	c2 "c2" (double, torsion(chin)), size is 54936
	AVERAGE_00016[avg] "AVERAGE_00016[avg]" (double), size is 1
	AVERAGE_00016[sd] "AVERAGE_00016[sd]" (double), size is 1
	AVERAGE_00016[ymin] "AVERAGE_00016[ymin]" (double), size is 1
	AVERAGE_00016[ymax] "AVERAGE_00016[ymax]" (double), size is 1
	AVERAGE_00016[yminidx] "AVERAGE_00016[yminidx]" (integer), size is 1
	AVERAGE_00016[ymaxidx] "AVERAGE_00016[ymaxidx]" (integer), size is 1
	AVERAGE_00016[names] "AVERAGE_00016[names]" (string), size is 1
	RMSD "RMSD" (double), size is 50
	CoM "CoM" (double), size is 100
	Hist_00025 "Hist_00025" (double), size is 100
	Hist_00026 "Hist_00026" (double), size is 100
	Hist_00027 "Hist_00027" (double matrix), size is 5000
	gamma_1 "gamma_1" (double), size is 360
	delta_1 "delta_1" (double), size is 360
	epsilon_1 "epsilon_1" (double), size is 360
	zeta_1 "zeta_1" (double), size is 360
	chi_1 "chi_1" (double), size is 360
	alpha_2 "alpha_2" (double), size is 360
	beta_2 "beta_2" (double), size is 360
	gamma_2 "gamma_2" (double), size is 360
	delta_2 "delta_2" (double), size is 360
	chi_2 "chi_2" (double), size is 360

DATAFILES (16 total):
  avg-rmsd-all.dat (Standard Data File):  AVERAGE_00016[avg] AVERAGE_00016[sd] AVERAGE_00016[ymin] AVERAGE_00016[ymax] AVERAGE_00016[yminidx] AVERAGE_00016[ymaxidx] AVERAGE_00016[names]
  rmsd-hist.dat (Standard Data File):  RMSD
  COM-hist.dat (Standard Data File):  CoM
  distO2O4-hist.dat (Standard Data File):  Hist_00025
  distN3-O5p-hist.dat (Standard Data File):  Hist_00026
  2dhist_rms-dist.gnu (Gnuplot File):  Hist_00027
  dihed_g1-hist.dat (Standard Data File):  gamma_1
  dihed_d1-hist.dat (Standard Data File):  delta_1
  dihed_e1-hist.dat (Standard Data File):  epsilon_1
  dihed_z1-hist.dat (Standard Data File):  zeta_1
  dihed_c1-hist.dat (Standard Data File):  chi_1
  dihed_a2-hist.dat (Standard Data File):  alpha_2
  dihed_b2-hist.dat (Standard Data File):  beta_2
  dihed_g2-hist.dat (Standard Data File):  gamma_2
  dihed_d2-hist.dat (Standard Data File):  delta_2
  dihed_c2-hist.dat (Standard Data File):  chi_2

RUN TIMING:
TIME:		Init               : 0.0001 s (  0.07%)
TIME:		Trajectory Process : 0.0909 s ( 67.72%)
TIME:		Action Post        : 0.0000 s (  0.00%)
TIME:		Analysis           : 0.0160 s ( 11.93%)
TIME:		Data File Write    : 0.0272 s ( 20.26%)
TIME:		Other              : 0.0000 s (  0.00%)
TIME:	Run Total 0.1343 s
---------- RUN END ---------------------------------------------------
TIME: Total execution time: 0.5968 seconds.
--------------------------------------------------------------------------------
To cite CPPTRAJ use:
Daniel R. Roe and Thomas E. Cheatham, III, "PTRAJ and CPPTRAJ: Software for
  Processing and Analysis of Molecular Dynamics Trajectory Data". J. Chem.
  Theory Comput., 2013, 9 (7), pp 3084-3095.