Hi all,
I am trying to correctly prepare a couple of ligands using antechamber.
I was already successful in preparing some ligands..
so I am wondering if:
a) I am wrong somewhere in the general protocol
b) If some parameters are really missing..
Any idea?
Thank you!
*Ligand 1 overall procedure*
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ *antechamber -i
RIBO_monomer_OK.pdb -fi pdb -o RIBO_monomer.mol2 -fo mol2 -c bcc -s 2*
Welcome to antechamber 17.3: molecular input file processor.
acdoctor mode is on: check and diagnosis problems in the input file.
-- Check Format for pdb File --
Status: pass
-- Check Unusual Elements --
Status: pass
-- Check Open Valences --
Status: pass
-- Check Geometry --
for those bonded
for those not bonded
Status: pass
-- Check Weird Bonds --
Status: pass
-- Check Number of Units --
Status: pass
acdoctor mode has completed checking the input file.
Running: /Users/Antonio/Desktop/amber18/bin/bondtype -j full -i
ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac
Running: /Users/Antonio/Desktop/amber18/bin/atomtype -i ANTECHAMBER_AC.AC0
-o ANTECHAMBER_AC.AC -p gaff
Info: Total number of electrons: 236; net charge: 0
Running: /Users/Antonio/Desktop/amber18/bin/sqm -O -i sqm.in -o sqm.out
Running: /Users/Antonio/Desktop/amber18/bin/am1bcc -i
ANTECHAMBER_AM1BCC_PRE.AC -o ANTECHAMBER_AM1BCC.AC -f ac -p
/Users/Antonio/Desktop/amber18/dat/antechamber/BCCPARM.DAT -s 2 -j 1
Running: /Users/Antonio/Desktop/amber18/bin/atomtype -f ac -p bcc -o
ANTECHAMBER_AM1BCC.AC -i ANTECHAMBER_AM1BCC_PRE.AC
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ vi sqm.out
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ *parmchk2 -i RIBO_monomer.mol2
-f mol2 -o RIBO.frcmod*
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ vi sqm.out
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ vi RIBO.frcmod
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ parmchk2 -i RIBO_monomer.mol2 -f
mol2 -o RIBO.frcmod
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ *cat RIBO.frcmod*
Remark line goes here
MASS
BOND
ANGLE
DIHE
IMPROPER
ca-ca-ca-ha 1.1 180.0 2.0 Using general
improper torsional angle X- X-ca-ha, penalty score= 6.0)
ca-ca-ca-nd 1.1 180.0 2.0 Using the
default value
ca-ca-ca-na 1.1 180.0 2.0 Using the
default value
c3-ca-na-cc 1.1 180.0 2.0 Using the
default value
cc-na-cc-nd 1.1 180.0 2.0 Using the
default value
n -nd-c -o 10.5 180.0 2.0 Using general
improper torsional angle X- X- c- o, penalty score= 6.0)
c -c -n -hn 1.1 180.0 2.0 Using general
improper torsional angle X- X- n-hn, penalty score= 6.0)
cc-n -c -o 10.5 180.0 2.0 Using general
improper torsional angle X- X- c- o, penalty score= 6.0)
c -cc-cc-nd 1.1 180.0 2.0 Using the
default value
NONBON
Antonios-MacBook-Air:RIBO_LIGANDO Antonio$ *tleap -f leaprc.ff14SB*
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/prep to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/lib to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/parm to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/cmd to search path.
-f: Source leaprc.ff14SB.
Welcome to LEaP!
(no leaprc in search path)
Sourcing: /Users/Antonio/Desktop/amber18/dat/leap/cmd/leaprc.ff14SB
Log file: ./leap.log
Loading parameters: /Users/Antonio/Desktop/amber18/dat/leap/parm/parm10.dat
Reading title:
PARM99 + frcmod.ff99SB + frcmod.parmbsc0 + OL3 for RNA
Loading parameters:
/Users/Antonio/Desktop/amber18/dat/leap/parm/frcmod.ff14SB
Reading force field modification type file (frcmod)
Reading title:
ff14SB protein backbone and sidechain parameters
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/amino12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/aminoct12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/aminont12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/nucleic12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/atomic_ions.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/solvents.lib
> *UNK = loadmol2 RIBO_monomer.mol2*
Loading Mol2 file: ./RIBO_monomer.mol2
Reading MOLECULE named UNK
> *list*
A A3 A5 ACE AG AL ALA AN
ARG ASH ASN ASP Ag BA BR Be
C C3 C5 CA CALA CARG CASN CASP
CCYS CCYX CD CE CGLN CGLU CGLY
CHCL3BOX
CHID CHIE CHIP CHIS CHYP CILE CL CLEU
CLYS CMET CN CO CPHE CPRO CR CS
CSER CTHR CTRP CTYR CU CU1 CVAL CYM
CYS CYX Ce Cl- Cr DA DA3 DA5
DAN DC DC3 DC4 DC5 DCN DG DG3
DG5 DGN DT DT3 DT5 DTN Dy EU
EU3 Er F FB3 FB3BOX FB4 FB4BOX FE
FE2 G G3 G5 GD3 GLH GLN GLU
GLY GN H3O+ HE+ HG HID HIE HIP
HIS HOH HYP HZ+ Hf ILE IN IOD
K K+ LA LEU LI LU LYN LYS
MEOHBOX MET MG MN NA NALA NARG NASN
NASP NCYS NCYX NGLN NGLU NGLY NH4 NHE
NHID NHIE NHIP NHIS NI NILE NLEU NLYS
NMABOX NME NMET NPHE NPRO NSER NTHR NTRP
NTYR NVAL Na+ Nd OHE OP3 OPC
OPC3BOX
OPCBOX PB PD PHE PL3 POL3BOX PR PRO
PT Pu QSPCFWBOX RB Ra S2P SER SM
SPC SPCBOX SPCFWBOX SPF SPG SR Sm Sn
T2P T4E TB THR TIP3PBOX TIP3PFBOX TIP4PBOX
TIP4PEWBOX
TIP5PBOX TL TP3 TP4 TP5 TPF TRP TYR
Th Tl Tm U U3 U4+ U5 UN
*UNK* V2+ VAL WAT Y YB2 ZN Zr
frcmod14SBparm10
> *check UNK*
Checking 'UNK'....
Checking parameters for unit 'UNK'.
Checking for bond parameters.
Error: Could not find bond parameter for: c3 - ca
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - nd
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - na
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: na - cc
Error: Could not find bond parameter for: na - c3
Error: Could not find bond parameter for: cc - nd
Error: Could not find bond parameter for: cc - cc
Error: Could not find bond parameter for: nd - c
Error: Could not find bond parameter for: c - o
Error: Could not find bond parameter for: c - n
Error: Could not find bond parameter for: n - c
Error: Could not find bond parameter for: n - hn
Error: Could not find bond parameter for: c - o
Error: Could not find bond parameter for: c - cc
Error: Could not find bond parameter for: cc - nd
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - os
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: os - p5
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: oh - ho
Error: Could not find bond parameter for: oh - ho
Error: Could not find bond parameter for: oh - ho
Checking for angle parameters.
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - nd
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - na
Error: Could not find angle parameter: ca - nd - cc
Error: Could not find angle parameter: ca - ca - nd
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - na - cc
Error: Could not find angle parameter: ca - na - c3
Error: Could not find angle parameter: ca - ca - na
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: na - cc - nd
Error: Could not find angle parameter: na - cc - cc
Error: Could not find angle parameter: na - c3 - c3
Error: Could not find angle parameter: na - c3 - h1
Error: Could not find angle parameter: na - c3 - h1
Error: Could not find angle parameter: cc - na - c3
Error: Could not find angle parameter: cc - nd - c
Error: Could not find angle parameter: cc - cc - c
Error: Could not find angle parameter: cc - cc - nd
Error: Could not find angle parameter: nd - cc - cc
Error: Could not find angle parameter: nd - c - o
Error: Could not find angle parameter: nd - c - n
Error: Could not find angle parameter: c - n - c
Error: Could not find angle parameter: c - n - hn
Error: Could not find angle parameter: o - c - n
Error: Could not find angle parameter: n - c - o
Error: Could not find angle parameter: n - c - cc
Error: Could not find angle parameter: c - n - hn
Error: Could not find angle parameter: c - cc - nd
Error: Could not find angle parameter: o - c - cc
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - os
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - os - p5
Error: Could not find angle parameter: os - c3 - h1
Error: Could not find angle parameter: os - c3 - h1
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: h1 - c3 - h1
Error: Could not find angle parameter: h1 - c3 - h1
Warning: There are missing parameters.
Unit is OK.
> *loadamberparams RIBO.frcmod*
Loading parameters: ./RIBO.frcmod
Reading force field modification type file (frcmod)
Reading title:
Remark line goes here
> check UNK
Checking 'UNK'....
Checking parameters for unit 'UNK'.
Checking for bond parameters.
Error: Could not find bond parameter for: c3 - ca
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - nd
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - na
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: na - cc
Error: Could not find bond parameter for: na - c3
Error: Could not find bond parameter for: cc - nd
Error: Could not find bond parameter for: cc - cc
Error: Could not find bond parameter for: nd - c
Error: Could not find bond parameter for: c - o
Error: Could not find bond parameter for: c - n
Error: Could not find bond parameter for: n - c
Error: Could not find bond parameter for: n - hn
Error: Could not find bond parameter for: c - o
Error: Could not find bond parameter for: c - cc
Error: Could not find bond parameter for: cc - nd
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - oh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - os
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: os - p5
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: p5 - o
Error: Could not find bond parameter for: oh - ho
Error: Could not find bond parameter for: oh - ho
Error: Could not find bond parameter for: oh - ho
Checking for angle parameters.
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - nd
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - na
Error: Could not find angle parameter: ca - nd - cc
Error: Could not find angle parameter: ca - ca - nd
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - na - cc
Error: Could not find angle parameter: ca - na - c3
Error: Could not find angle parameter: ca - ca - na
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: na - cc - nd
Error: Could not find angle parameter: na - cc - cc
Error: Could not find angle parameter: na - c3 - c3
Error: Could not find angle parameter: na - c3 - h1
Error: Could not find angle parameter: na - c3 - h1
Error: Could not find angle parameter: cc - na - c3
Error: Could not find angle parameter: cc - nd - c
Error: Could not find angle parameter: cc - cc - c
Error: Could not find angle parameter: cc - cc - nd
Error: Could not find angle parameter: nd - cc - cc
Error: Could not find angle parameter: nd - c - o
Error: Could not find angle parameter: nd - c - n
Error: Could not find angle parameter: c - n - c
Error: Could not find angle parameter: c - n - hn
Error: Could not find angle parameter: o - c - n
Error: Could not find angle parameter: n - c - o
Error: Could not find angle parameter: n - c - cc
Error: Could not find angle parameter: c - n - hn
Error: Could not find angle parameter: c - cc - nd
Error: Could not find angle parameter: o - c - cc
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - os
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - oh - ho
Error: Could not find angle parameter: c3 - c3 - oh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - os - p5
Error: Could not find angle parameter: os - c3 - h1
Error: Could not find angle parameter: os - c3 - h1
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: os - p5 - o
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: oh - c3 - h1
Error: Could not find angle parameter: o - p5 - o
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: h1 - c3 - h1
Error: Could not find angle parameter: h1 - c3 - h1
Warning: There are missing parameters.
Unit is OK.
*Ligand 2*
Antonios-MacBook-Air:kira_try Antonio$ *antechamber -i CRYSTAL_kira_A.pdb
-fi pdb -o KIRA.mol2 -fo mol2 -c bcc -s 2*
Welcome to antechamber 17.3: molecular input file processor.
acdoctor mode is on: check and diagnosis problems in the input file.
-- Check Format for pdb File --
Status: pass
-- Check Unusual Elements --
Status: pass
-- Check Open Valences --
Status: pass
-- Check Geometry --
for those bonded
for those not bonded
Status: pass
-- Check Weird Bonds --
Status: pass
-- Check Number of Units --
Status: pass
acdoctor mode has completed checking the input file.
Running: /Users/Antonio/Desktop/amber18/bin/bondtype -j full -i
ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac
Running: /Users/Antonio/Desktop/amber18/bin/atomtype -i ANTECHAMBER_AC.AC0
-o ANTECHAMBER_AC.AC -p gaff
Info: Total number of electrons: 323; net charge: 0
Info: The number of electrons is odd (323).
Please check the total charge (-nc flag) and spin multiplicity (-m
flag).
Running: /Users/Antonio/Desktop/amber18/bin/sqm -O -i sqm.in -o sqm.out
/Users/Antonio/Desktop/amber18/bin/to_be_dispatched/antechamber: Fatal
Error!
Cannot properly run "/Users/Antonio/Desktop/amber18/bin/sqm -O -i sqm.in -o
sqm.out".
Antonios-MacBook-Air:kira_try Antonio$ *antechamber -i CRYSTAL_kira_A.pdb
-fi pdb -o KIRA.mol2 -fo mol2 -c bcc -s 2 -nc 1*
Welcome to antechamber 17.3: molecular input file processor.
acdoctor mode is on: check and diagnosis problems in the input file.
-- Check Format for pdb File --
Status: pass
-- Check Unusual Elements --
Status: pass
-- Check Open Valences --
Status: pass
-- Check Geometry --
for those bonded
for those not bonded
Status: pass
-- Check Weird Bonds --
Status: pass
-- Check Number of Units --
Status: pass
acdoctor mode has completed checking the input file.
Running: /Users/Antonio/Desktop/amber18/bin/bondtype -j full -i
ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac
Running: /Users/Antonio/Desktop/amber18/bin/atomtype -i ANTECHAMBER_AC.AC0
-o ANTECHAMBER_AC.AC -p gaff
Info: Total number of electrons: 322; net charge: 1
Running: /Users/Antonio/Desktop/amber18/bin/sqm -O -i sqm.in -o sqm.out
Running: /Users/Antonio/Desktop/amber18/bin/am1bcc -i
ANTECHAMBER_AM1BCC_PRE.AC -o ANTECHAMBER_AM1BCC.AC -f ac -p
/Users/Antonio/Desktop/amber18/dat/antechamber/BCCPARM.DAT -s 2 -j 1
Running: /Users/Antonio/Desktop/amber18/bin/atomtype -f ac -p bcc -o
ANTECHAMBER_AM1BCC.AC -i ANTECHAMBER_AM1BCC_PRE.AC
Antonios-MacBook-Air:kira_try Antonio$ vi sqm.out
Antonios-MacBook-Air:kira_try Antonio$ parmchk2
ANTECHAMBER_AC.AC ANTECHAMBER_AM1BCC_PRE.AC ATOMTYPE.INF
sqm.in
ANTECHAMBER_AC.AC0 ANTECHAMBER_BOND_TYPE.AC CRYSTAL_kira_A.pdb
sqm.out
ANTECHAMBER_AM1BCC.AC ANTECHAMBER_BOND_TYPE.AC0 KIRA.mol2
sqm.pdb
Antonios-MacBook-Air:kira_try Antonio$ *parmchk2 -i KIRA.mol2 -f mol2 -o
kira.frcmod*
Antonios-MacBook-Air:kira_try Antonio$ vi kira.frcmod
Antonios-MacBook-Air:kira_try Antonio$ cat kira.frcmod
Remark line goes here
MASS
BOND
ANGLE
DIHE
ca-cp-nb-ca 2 9.600 180.000 2.000 same as X
-ca-nb-X , penalty score=418.5
cp-cp-nb-ca 2 9.600 180.000 2.000 same as X
-ca-nb-X , penalty score=418.5
IMPROPER
c3-ca-nh-hn 1.1 180.0 2.0 Same as X -X
-na-hn, penalty score= 41.2 (use general term))
nb-nb-ca-nh 10.5 180.0 2.0 Same as X
-n2-ca-n2, penalty score= 48.6 (use general term))
ca-h4-ca-nb 1.1 180.0 2.0 Same as X -X
-ca-ha, penalty score= 44.3 (use general term))
ca-cp-ca-ha 1.1 180.0 2.0 Using general
improper torsional angle X- X-ca-ha, penalty score= 6.0)
ca-cp-cp-nb 1.1 180.0 2.0 Using the
default value
ca-ca-cp-cp 1.1 180.0 2.0 Same as
c2-ca-ca-ca, penalty score=309.7)
ca-ca-ca-ha 1.1 180.0 2.0 Using general
improper torsional angle X- X-ca-ha, penalty score= 6.0)
cp-nb-ca-os 1.1 180.0 2.0 Using the
default value
ca-ca-ca-os 1.1 180.0 2.0 Using the
default value
ca-ca-ca-ca 1.1 180.0 2.0 Same as
c2-ca-ca-ca, penalty score= 31.1)
ca-ca-ca-nh 1.1 180.0 2.0 Using the
default value
ca-hn-nh-sy 1.1 180.0 2.0 Same as X -X
-na-hn, penalty score= 41.2 (use general term))
ca-ca-ca-sy 1.1 180.0 2.0 Using the
default value
NONBON
Antonios-MacBook-Air:kira_try Antonio$ *tleap -f leaprc.ff14SB*
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/prep to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/lib to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/parm to search path.
-I: Adding /Users/Antonio/Desktop/amber18/dat/leap/cmd to search path.
-f: Source leaprc.ff14SB.
Welcome to LEaP!
(no leaprc in search path)
Sourcing: /Users/Antonio/Desktop/amber18/dat/leap/cmd/leaprc.ff14SB
Log file: ./leap.log
Loading parameters: /Users/Antonio/Desktop/amber18/dat/leap/parm/parm10.dat
Reading title:
PARM99 + frcmod.ff99SB + frcmod.parmbsc0 + OL3 for RNA
Loading parameters:
/Users/Antonio/Desktop/amber18/dat/leap/parm/frcmod.ff14SB
Reading force field modification type file (frcmod)
Reading title:
ff14SB protein backbone and sidechain parameters
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/amino12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/aminoct12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/aminont12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/nucleic12.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/atomic_ions.lib
Loading library: /Users/Antonio/Desktop/amber18/dat/leap/lib/solvents.lib
> 3E4 = loadmol2 kira.mol2
Error: Error from the parser: syntax error
> 3E4 = loadmol2 KIRA.mol2
Error: Error from the parser: syntax error
> *A1001 = loadmol2 KIRA.mol2*
Loading Mol2 file: ./KIRA.mol2
Reading MOLECULE named 3E4
> list
A *A1001* A3 A5 ACE AG AL
ALA
AN ARG ASH ASN ASP Ag BA BR
Be C C3 C5 CA CALA CARG CASN
CASP CCYS CCYX CD CE CGLN CGLU CGLY
CHCL3BOX CHID CHIE CHIP CHIS CHYP CILE CL
CLEU CLYS CMET CN CO CPHE CPRO CR
CS CSER CTHR CTRP CTYR CU CU1 CVAL
CYM CYS CYX Ce Cl- Cr DA DA3
DA5 DAN DC DC3 DC4 DC5 DCN DG
DG3 DG5 DGN DT DT3 DT5 DTN Dy
EU EU3 Er F FB3 FB3BOX FB4
FB4BOX
FE FE2 G G3 G5 GD3 GLH GLN
GLU GLY GN H3O+ HE+ HG HID HIE
HIP HIS HOH HYP HZ+ Hf ILE IN
IOD K K+ LA LEU LI LU LYN
LYS MEOHBOX MET MG MN NA NALA NARG
NASN NASP NCYS NCYX NGLN NGLU NGLY NH4
NHE NHID NHIE NHIP NHIS NI NILE NLEU
NLYS NMABOX NME NMET NPHE NPRO NSER NTHR
NTRP NTYR NVAL Na+ Nd OHE OP3 OPC
OPC3BOX OPCBOX PB PD PHE PL3 POL3BOX PR
PRO PT Pu QSPCFWBOX RB Ra S2P SER
SM SPC SPCBOX SPCFWBOX SPF SPG SR Sm
Sn T2P T4E TB THR TIP3PBOX TIP3PFBOX
TIP4PBOX
TIP4PEWBOXTIP5PBOX TL TP3 TP4 TP5 TPF TRP
TYR Th Tl Tm U U3 U4+ U5
UN V2+ VAL WAT Y YB2 ZN Zr
frcmod14SBparm10
> check 1001
Error: check: Argument #1 is type Double must be of type: [unit molecule
residue atom]
usage: check <unit> [parmset]
> *check A1001*
Checking 'A1001'....
Warning: The unperturbed charge of the unit (1.004000) is not zero.
Checking parameters for unit 'A1001'.
Checking for bond parameters.
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - n4
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hx
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - nh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: nh - ca
Error: Could not find bond parameter for: nh - hn
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: nb - cp
Error: Could not find bond parameter for: nb - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - h4
Error: Could not find bond parameter for: ca - cp
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: cp - cp
Error: Could not find bond parameter for: cp - ca
Error: Could not find bond parameter for: cp - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: ca - h4
Error: Could not find bond parameter for: nb - ca
Error: Could not find bond parameter for: ca - os
Error: Could not find bond parameter for: os - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - c3
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - nh
Error: Could not find bond parameter for: nh - sy
Error: Could not find bond parameter for: nh - hn
Error: Could not find bond parameter for: sy - o
Error: Could not find bond parameter for: sy - o
Error: Could not find bond parameter for: sy - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - cl
Checking for angle parameters.
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - nh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - n4
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: n4 - c3 - c3
Error: Could not find angle parameter: n4 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - nh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - nh - ca
Error: Could not find angle parameter: c3 - nh - hn
Error: Could not find angle parameter: nh - c3 - h1
Error: Could not find angle parameter: nh - ca - nb
Error: Could not find angle parameter: nh - ca - nb
Error: Could not find angle parameter: ca - nh - hn
Error: Could not find angle parameter: ca - nb - cp
Error: Could not find angle parameter: ca - nb - ca
Error: Could not find angle parameter: nb - ca - nb
Error: Could not find angle parameter: nb - cp - ca
Error: Could not find angle parameter: nb - cp - cp
Error: Could not find angle parameter: nb - ca - ca
Error: Could not find angle parameter: nb - ca - h4
Error: Could not find angle parameter: ca - ca - cp
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - h4
Error: Could not find angle parameter: ca - cp - cp
Error: Could not find angle parameter: cp - ca - ha
Error: Could not find angle parameter: cp - cp - ca
Error: Could not find angle parameter: cp - cp - ca
Error: Could not find angle parameter: cp - ca - ca
Error: Could not find angle parameter: cp - ca - ha
Error: Could not find angle parameter: cp - ca - nb
Error: Could not find angle parameter: cp - ca - os
Error: Could not find angle parameter: ca - cp - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - nb
Error: Could not find angle parameter: ca - ca - h4
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - nb - ca
Error: Could not find angle parameter: nb - ca - h4
Error: Could not find angle parameter: nb - ca - os
Error: Could not find angle parameter: ca - os - ca
Error: Could not find angle parameter: os - ca - ca
Error: Could not find angle parameter: os - ca - ca
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - nh
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - nh
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - nh - sy
Error: Could not find angle parameter: ca - nh - hn
Error: Could not find angle parameter: nh - sy - o
Error: Could not find angle parameter: nh - sy - o
Error: Could not find angle parameter: nh - sy - ca
Error: Could not find angle parameter: sy - nh - hn
Error: Could not find angle parameter: sy - ca - ca
Error: Could not find angle parameter: sy - ca - ca
Error: Could not find angle parameter: o - sy - o
Error: Could not find angle parameter: o - sy - ca
Error: Could not find angle parameter: o - sy - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - cl
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - cl
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Warning: There are missing parameters.
check: Warnings: 1
Unit is OK.
> *loadamberparams kira.frcmod*
Loading parameters: ./kira.frcmod
Reading force field modification type file (frcmod)
Reading title:
Remark line goes here
> check A1101
Error: check: Argument #1 is type String must be of type: [unit molecule
residue atom]
usage: check <unit> [parmset]
> *check A1001*
Checking 'A1001'....
Warning: The unperturbed charge of the unit (1.004000) is not zero.
Checking parameters for unit 'A1001'.
Checking for bond parameters.
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - n4
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hx
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: n4 - hn
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - c3
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - nh
Error: Could not find bond parameter for: c3 - h1
Error: Could not find bond parameter for: nh - ca
Error: Could not find bond parameter for: nh - hn
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: nb - cp
Error: Could not find bond parameter for: nb - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - h4
Error: Could not find bond parameter for: ca - cp
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: cp - cp
Error: Could not find bond parameter for: cp - ca
Error: Could not find bond parameter for: cp - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - nb
Error: Could not find bond parameter for: ca - h4
Error: Could not find bond parameter for: nb - ca
Error: Could not find bond parameter for: ca - os
Error: Could not find bond parameter for: os - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - c3
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: c3 - hc
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - nh
Error: Could not find bond parameter for: nh - sy
Error: Could not find bond parameter for: nh - hn
Error: Could not find bond parameter for: sy - o
Error: Could not find bond parameter for: sy - o
Error: Could not find bond parameter for: sy - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - ca
Error: Could not find bond parameter for: ca - ha
Error: Could not find bond parameter for: ca - cl
Checking for angle parameters.
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - nh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - n4
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - n4 - hn
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: n4 - c3 - c3
Error: Could not find angle parameter: n4 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - hx
Error: Could not find angle parameter: c3 - c3 - c3
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - nh
Error: Could not find angle parameter: c3 - c3 - h1
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - c3 - hc
Error: Could not find angle parameter: c3 - nh - ca
Error: Could not find angle parameter: c3 - nh - hn
Error: Could not find angle parameter: nh - c3 - h1
Error: Could not find angle parameter: nh - ca - nb
Error: Could not find angle parameter: nh - ca - nb
Error: Could not find angle parameter: ca - nh - hn
Error: Could not find angle parameter: ca - nb - cp
Error: Could not find angle parameter: ca - nb - ca
Error: Could not find angle parameter: nb - ca - nb
Error: Could not find angle parameter: nb - cp - ca
Error: Could not find angle parameter: nb - cp - cp
Error: Could not find angle parameter: nb - ca - ca
Error: Could not find angle parameter: nb - ca - h4
Error: Could not find angle parameter: ca - ca - cp
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - h4
Error: Could not find angle parameter: ca - cp - cp
Error: Could not find angle parameter: cp - ca - ha
Error: Could not find angle parameter: cp - cp - ca
Error: Could not find angle parameter: cp - cp - ca
Error: Could not find angle parameter: cp - ca - ca
Error: Could not find angle parameter: cp - ca - ha
Error: Could not find angle parameter: cp - ca - nb
Error: Could not find angle parameter: cp - ca - os
Error: Could not find angle parameter: ca - cp - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - nb
Error: Could not find angle parameter: ca - ca - h4
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - nb - ca
Error: Could not find angle parameter: nb - ca - h4
Error: Could not find angle parameter: nb - ca - os
Error: Could not find angle parameter: ca - os - ca
Error: Could not find angle parameter: os - ca - ca
Error: Could not find angle parameter: os - ca - ca
Error: Could not find angle parameter: ca - ca - c3
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - c3 - hc
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: c3 - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - nh
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - nh
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - nh - sy
Error: Could not find angle parameter: ca - nh - hn
Error: Could not find angle parameter: nh - sy - o
Error: Could not find angle parameter: nh - sy - o
Error: Could not find angle parameter: nh - sy - ca
Error: Could not find angle parameter: sy - nh - hn
Error: Could not find angle parameter: sy - ca - ca
Error: Could not find angle parameter: sy - ca - ca
Error: Could not find angle parameter: o - sy - o
Error: Could not find angle parameter: o - sy - ca
Error: Could not find angle parameter: o - sy - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - cl
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ca
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: ca - ca - cl
Error: Could not find angle parameter: ca - ca - ha
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hn - n4 - hn
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Error: Could not find angle parameter: hc - c3 - hc
Warning: There are missing parameters.
check: Warnings: 1
Unit is OK.
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Received on Tue Oct 02 2018 - 01:00:02 PDT
