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|
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% mcf2graph ver 4.29 Copyright (c) 2013-2017 Akira Yamaji
%
% Permission is hereby granted, free of charge, to any person obtaining a copy of this software
% and associated documentation files (the "Software"), to deal in the Software without restriction,
% including without limitation the rights to use, copy, modify, merge, publish, distribute,
% sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is
% furnished to do so, subject to the following conditions:
%
% The above copyright notice and this permission notice shall be included in all copies
% or substantial portions of the Software.
%
% THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,EXPRESS OR IMPLIED,
% INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,FITNESS FOR A PARTICULAR PURPOSE
% AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM,
% DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
% OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% mcf2graph is METAFONT/METAPOST macro package convert
% Molecular Coding Format(MCF) to font(pk)/eps/sgv/png/mdl molfile(V2000)
%----------------------------------------------------------------------------------------------
% This package is located at : http://www.ctan.org/pkg/mcf2graph
% Suggestion or request mail to : mcf2graph@gmail.com
%----------------------------------------------------------------------------------------------
% Set output no image file : mpost -s ahangle=0 FILENAME
% Set outputformat to "png" : mpost -s ahangle=1 FILENAME
% Set outputformat to "svg" : mpost -s ahangle=2 FILENAME
% Set outputformat to MDL Molfile : mpost -s ahangle=3 FILENAME
% Set make first font only : mpost -s ahlength=1 FILENAME
% Set output report : mpost -s ahlength=2 FILENAME
% Set to use plain.mp label,arrow : mpost -s ahlength=3 FILENAME
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
tracingstats:=1;
message " This is mcf2graph ver 4.2 2017.10";
%-------------------------------------------------------------------------------------------------
newinternal nA,nB,nC,nD,nE,nF,char_num,str_cnt,sub_usr,sub_int,tbl_cnt;
numeric save_para[],comD[][],parD[][],cntD[],tbl_str_wd[],tbl_atom[],tbl_subst[][],tbl_atom_wt[],
tbl_atom_mi[],tbl_char_wd[],tbl_char_ht[];
string tbl_atom_str[],strD[],var[],tag[],mp_log_name,aux_delimiter,atomfont,
save_atomfont,save_defaultfont;
picture mol_stru[];
path arrow_path,arrow_head;
%-------------------------------------------------------------------------------------------------
char_num:=str_cnt:=proc_end:=sw_label_emu:=0;
sw_numberA:=sw_numberB:=sw_mol_frame:=sw_auxout:=sw_solid:=sw_expand:=sw_font_frame:=sw_clip:=0;
sw_atom_frame:=sw_report:=sw_MOLout:=sw_subst_off:=sw_bond_single:=sw_auxfix:=sw_arrow:=0;
numberA_start:=numberB_start:=1; numberA_end:=numberB_end:=4095; aux_max:=max_inf_num:=20;
aux_delimiter:=";"; var1:="jobname"; tag1:="F"; var2:="char_num"; tag2:="C";
for i=3 upto aux_max: var[i]:=tag[i]:=""; endfor
%=================================================================================================
if (known green)and(known ahlength):
f_MP:=1;
color color_list[];
atomfont:=defaultfont:="";
mp_log_name:=jobname&"-info.aux";
if ahlength=1: proc_end:=1; % first molecular only
elseif ahlength=2: sw_report:=1; def shipit = enddef; % report on
elseif ahlength=3: sw_arrow:=1; defaultfont:="uhvr8r"; % use mp label
elseif ahlength=5: sw_arrow:=1; defaultfont:=atomfont:="uhvr8r"; % use mp atom,label
fi
if ahangle=0: def shipit = enddef; % No image file
elseif ahangle=1: outputformat:="png"; hppp:=vppp:=0.1; % PNG format
elseif ahangle=2: outputformat:="svg"; % SVG format
elseif ahangle=3: sw_MOLout:=1; def shipit = enddef; % MDL Molefile on
fi
outputtemplate:="%j-%3c."&outputformat;
def beginchar(expr a,b,c,d)= beginfig(a) w:=b*pt; h:=c*pt; enddef;
def endchar = endfig enddef;
def printf expr s= write s to mp_log_name enddef;
def # = enddef;
def Cp(expr s) = if known s: if s<>0: withcolor color_list[s] fi fi enddef;
if atomfont="": atomfont:="draw"; fi % default atom font
if defaultfont="": defaultfont:="draw"; fi % default label font
else: f_MP:=0;
string defaultfont;
dotlabeldiam:=3bp;
def Cp(expr s) = enddef;
def color = transform enddef;
def printf expr s= message s enddef;
%-----------------------------------------------------------------------
sw_arrow:=0;
dotlabeldiam:=3bp;
%-----------------------------------------------------------------------
atomfont:="draw";
defaultfont:="draw";
mode_setup;
fi
clearit;
for i=0 upto 20: mol_stru[i]:=nullpicture; endfor
%--------------------------------------------------------------------------------------------------
let DIV= /; let MUL= *; let LT= <; let GT= >; let AND= &; let :: = : ; let == = =;
%--------------------------------------------------------------------------------------------------
?3:=?20:=Ph:=Ph1:=Ph2:=hz:=0; vt:=1;
margin_left_right:=margin_top_bottom:=0.4mm; ratio_bond_width:=0.1;
ratio_chain_ring:= 0.66; ratio_atom_bond:=0.36; ratio_thickness_bond:=0.015;
ratio_char_bond:=1.5; ratio_bondgap_bond:=0.15; ratio_zebragap_bond:=0.12;
ratio_zebra_black:=0.4; ratio_wedge_bond:=0.12; ratio_atomgap_atom:=0.050;
offset_thickness:=0.2pt; offset_bond_gap:=0.3pt; offset_zebra_gap:=0.1pt;
offset_atom:=0.8pt; offset_wedge:=0.4pt; thickness_font_frame:=0.2pt;
max_bond_length:=10mm; bond_len:=8mm;
font_wd:=30mm; font_ht:=20mm;
%==================================================================================================
ahangle:=45;
ahlength:=4bp;
defaultsize:=8bp;
atomfontsize:=8bp;
defaultscale:=1;
labeloffset:=3bp;
ext_defaultline:=0.5bp;
%==================================================================================================
sub_emb_start:=500; % 500 => 2499 for embedded sub structure (max 2000)
sub_usr_start:=2500; % 2500 => 2999 for user sub structure (max 500)
sub_int_start:=3000; % 3000 => 4000 for internal sub structure (max 1000)
%--------------------------------------------------------------------------------------------------
def def_com(expr n)(text tx)= nA:=n; forsuffixes list=tx:: list:=nA; nA:=nA+1; endfor enddef;
def_com(-4000)(_term,_jp_atom,_jp_atom_abs,_jp_bond,_cyc,_cyc_sB,_cyc_eB,_set_line,_chg_line,
_dl,_mb,_N,_O,_S,_H,_tmp_line,_chg_len,_get_len,_ring_len,_tmp_len,_rot_ang,_adj_ang,_chg_env,
_tmp_env,_set_colorA,_set_colorB,_postA,_postB,_postC,_postD,_postE,_postF,_postH,_stack_reset,
_set_clr,_set_adr,_mk_bond,_set_atom,_arg_ang,_chg_atom,_tmp_rot,_fuse,_push,_pop,
_size_a,_numeric);
def_com(1)(si,dl,dr,db,dm,tm,wf,wb,bd,bz,zf,zb,dt,wv,nl,vf,vb,si_,wf_,wb_,bd_);
%--------------------------------------------------------------------------------------------------
def parameter_list=
sw_report,sw_numberA,sw_numberB,sw_mol_frame,sw_auxout,sw_solid,sw_expand,sw_MOLout,
sw_atom_frame,sw_font_frame,sw_subst_off,sw_bond_single,sw_clip,sw_arrow,sw_label_emu,
margin_left_right,margin_top_bottom,ratio_atom_bond,ratio_thickness_bond,ratio_char_bond,
ratio_chain_ring,ratio_bondgap_bond,ratio_zebra_black,ratio_zebragap_bond,
ratio_wedge_bond,ratio_atomgap_atom,ratio_bond_width,font_wd,font_ht,
bond_len,offset_atom,offset_wedge,max_bond_length,offset_zebra_gap,offset_bond_gap,
thickness_font_frame,offset_thickness,numberA_start,numberA_end,numberB_start,numberB_end,
atomfontsize,defaultsize,defaultscale,labeloffset
enddef;
%--------------------------------------------------------------------------------------------------
vardef pic_c(expr i,s)= substring(i,i+1) of s enddef;
%--------------------------------------------------------------------------------------------------
nA:=0; for list=parameter_list: save_para[incr nA]:=list; endfor
def store_par(text t)=
nA:=0; for list=t: if save_para[incr nA]<>list: save_para[nA]:=list; fi endfor enddef;
def restore_par(text t)= nA:=0;
forsuffixes list=t: if list<>save_para[incr nA]: list:=save_para[nA]; fi endfor enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def beginfont(text s)=
char_num:=char_num+1;
store_par(parameter_list);
save_atomfont:=atomfont;
save_defaultfont:=defaultfont;
begingroup
save cntA,cntB,cntM,minX,minY,f_beginchar,numS,sftX,sftY,f_ext,
cal_FM,cal_MW,cal_MW_str,cal_MI,cal_MI_str,wdM,htM,
inf_NO,inf_EN,inf_JN,inf_FM,inf_CAS,inf_USE,inf_EXA,inf_EXB,inf_MW,
posBs,posBe,posA,posM,lineB,sB,eB,angB,angA,lenB,ang_br,info,pT;
numeric lineB[],sB[],eB[],angB[],angA[],lenB[],ang_br[],numS[],wdM[],htM[];
pair posA[],posM[][],pT,posBs,posBe;
string info[],cal_FM,cal_MW,cal_MW_str,cal_MI,cal_MI_str,
inf_NO,inf_EN,inf_JN,inf_FM,inf_CAS,inf_USE,inf_EXA,inf_EXB,inf_MW;
%------------------------------------------------------------------------------------------------
for i:=1 upto max_inf_num: info[i]:=":"; endfor
f_ext:=inf_num:=cntM:=0;
for list=s: info[incr inf_num]:=list; endfor
enddef;
%==================================================================================================
def endfont=
if sw_clip>0:
nA:=4095; nB:=-4095; nC:=4095; nD:=-4095;
for i=1 upto cntM:
if xpart(posM[1][i])<nA: nA:=xpart(posM[1][i]); fi
if xpart(posM[2][i])>nB: nB:=xpart(posM[2][i]); fi
if ypart(posM[1][i])<nC: nC:=ypart(posM[1][i]); fi
if ypart(posM[2][i])>nD: nD:=ypart(posM[2][i]); fi
endfor
font_wd:=nB-nA+2margin_left_right;
font_ht:=nD-nC+2margin_top_bottom;
for i=1 upto cntM:
posM[0][i]:=posM[0][i]+(margin_left_right-nA,margin_top_bottom-nC);
endfor
fi
%-----------------------------------------------------------------------------------------------
beginchar(char_num,font_wd/bp*bp#,font_ht/bp*bp#,0)
if (sw_font_frame=1)or(sw_font_frame=3): draw_frame((0,0),w,h,thickness_font_frame); fi
if (sw_font_frame=2)or(sw_font_frame=3):
nA:=w-2margin_left_right; nB:=h-2margin_top_bottom;
pT:=(margin_left_right,margin_top_bottom);
draw_frame(pT,nA,nB,thickness_font_frame); fi
if sw_font_frame=4: draw_corner(w,h,thickness_font_frame); fi
for i=1 upto cntM:
addto currentpicture also mol_stru[i] shifted posM[0][i]; mol_stru[i]:=nullpicture;
endfor
if f_ext=1: addto currentpicture also mol_stru[0]; mol_stru[0]:=nullpicture; fi
endchar;
clearit;
endgroup;
restore_par(parameter_list);
atomfont:=save_atomfont;
defaultfont:=save_defaultfont;
if proc_end=1: scantokens("bye"); fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def set_def_MC=
save /,//,/*,*/,**,~,~~,^,^^,`,'`,<,>,>>,:>,&,&$,:,=,\,\\,*\,\*,@,$,{,},
|,||,|<,>|,|:,:|,_,d,w,z,inside_def_MC;
inside_def_MC:=1;
_:=Me; d:=db; w:=wf; z:=zf;
tertiarydef a=b == change_bond(a)(b) enddef;
tertiarydef a:b == change_atom(a)(b) enddef;
def { == '''( enddef; let } == );
vardef $primary a == a-4095 enddef;
def &primary n ==(_cyc,n) enddef;
def &$ == & $ enddef;
def ^^primary n == (_tmp_rot,n) enddef; def ~~primary n == (_tmp_line,n) enddef;
def '`primary n == (_tmp_len,n) enddef; def :>primary n == (_tmp_env,n) enddef;
def >>primary n == (_chg_env,n) enddef; def ``primary n == (_chg_len,n) enddef;
def <primary n == (_rot_ang,n) enddef;
tertiarydef a^b == ^^b,a enddef; tertiarydef a`b == '`b,a enddef;
tertiarydef a~b == ~~b,a enddef; tertiarydef a>b == :>b,a enddef;
def @ == JP_AT enddef; def \ == @,0 enddef;
def \\ == \~dm enddef; def *\ == \~wf enddef; def \* == \~zf enddef;
def |< == (_push,1) enddef; def >| == (_pop,1) enddef;
def | == |<,>| enddef; def || == (_stack_reset,0) enddef;
def |: == (_push,0) enddef; def :| == (_pop,0) enddef;
def /secondary n == (_postA,n) enddef; def //secondary n == (_postB,n) enddef;
def */secondary n == (_postC,n) enddef; def /*secondary n == (_postD,n) enddef;
def */*secondary n == (_postE,n) enddef; def **secondary n == (_postF,n) enddef;
enddef;
%=================================================================================================
vardef '(text s)= ''(incr sub_usr)(s); sub_usr enddef;
%-------------------------------------------------------------------------------------------------
def ''(expr k)(text TXT)=
begingroup
if unknown inside_def_MC:: set_def_MC fi
cntD[k]:=0;
for list==TXT::
if known list::
if pair list:: comD[k][incr cntD[k]]:=xpart(list); parD[k][cntD[k]]:=ypart(list);
elseif numeric list::
if list>=sub_emb_start::
for i==1 upto cntD[list]::
comD[k][incr cntD[k]]:=comD[list][i]; parD[k][cntD[k]]:=parD[list][i];
endfor
else:: comD[k][incr cntD[k]]:=_mk_bond; parD[k][cntD[k]]:=list; fi
elseif string list:: strD[incr str_cnt]:=list;
comD[k][incr cntD[k]]:=_set_atom; parD[k][cntD[k]]:=str_cnt;
if pic_c(0,list)=="{":: tbl_str_wd[str_cnt]:=1.6; else:: tbl_str_wd[str_cnt]:=1; fi
fi
fi
endfor
endgroup
enddef;
%-------------------------------------------------------------------------------------------------
vardef '''(text TXT)=
sub_int:=sub_int+1;
cntD[sub_int]:=0;
for list==TXT:: cntD[sub_int]:=cntD[sub_int]+1;
if numeric list::
comD[sub_int][cntD[sub_int]]:=_numeric; parD[sub_int][cntD[sub_int]]:=list;
elseif pair list::
comD[sub_int][cntD[sub_int]]:=xpart(list); parD[sub_int][cntD[sub_int]]:=ypart(list);
fi
endfor
sub_int %------- Retern value -------
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def FR(expr a)(expr b) =
PA(_jp_bond,a) PA(_rot_ang,180) PA(_get_len,a) PA(_push,0)
PA(_chg_len,_ring_len) for i==1 upto b-2:: PA(_mk_bond,360 DIV b) endfor PA(_pop,0)
if a>=1:: PA(_cyc_eB,0) elseif a>=-999:: PA(_cyc_eB,a-b+2) else:: PA(_cyc_eB,a) fi
enddef;
%-------------------------------------------------------------------------------------------------
def FFR(expr a)(expr b)(expr c) =
PA(_jp_bond,xpart(a)) PA(_rot_ang,180) PA(_push,0)
if b==6:: PA(_chg_len,0) for i==1 upto c-1:: PA(_mk_bond,60) endfor
elseif b==5:: if c==2:: PA(_chg_len,1.25) PA(_mk_bond,80)
elseif c==3:: PA(_chg_len,1.1) PA(_mk_bond,78) PA(_mk_bond,72) fi
elseif b==4:: PA(_chg_len,1.225) PA(_mk_bond,105) fi
PA(_pop,0) if ypart(a)<=0:: PA(_cyc_eB,ypart(a)-c+1) else:: PA(_cyc_eB,ypart(a)) fi
enddef;
%-------------------------------------------------------------------------------------------------
def FRR(expr a)(expr b)(expr c) =
PA(_jp_bond,a) PA(_rot_ang,180) PA(_push,0) PA(_chg_len,c DIV 10)
if b==5:: PA(_mk_bond,72-((c-9) MUL 1.5)) PA(_mk_bond,72+(c-9)) PA(_mk_bond,72+(c-9))
elseif b==6:: PA(_mk_bond,60-(c-8)) for i==1 upto 3:: PA(_mk_bond,60+((c-8) DIV 2)) endfor
elseif b==7:: PA(_mk_bond,360 DIV 7-(c-8))
for i==1 upto 4:: PA(_mk_bond,360 DIV 7+((c-8) DIV 2.5)) endfor
elseif b==8:: PA(_mk_bond,45-(c-8)) for i==1 upto 5:: PA(_mk_bond,45+((c-8) DIV 3)) endfor
fi
PA(_pop,0) if a>=1:: PA(_cyc_eB,0) else:: PA(_cyc_eB,list) fi
enddef;
%==================================================================================================
vardef change_bond(expr a)(expr e) =
sub_int:=sub_int+1;
cntD[sub_int]:=0;
if known e:: if numeric e::
if (e>=si)and(e<=bd_):: if e==dl:: PP(a)(_dl) else:: PX(a)(_set_line,e) fi
elseif (e>=?3)and(e<=?20)::
if a>=sub_int_start:: for i==1 upto cntD[a]:: FR(parD[a][i])(e-?3+3) endfor
else:: FR(a)(e-?3+3)
fi
elseif e==Ph1:: FR(a)(6) PA(_dl,-2) PA(_dl,-4)
elseif e==Ph2:: FR(a)(6) PA(_dl,-1) PA(_dl,-3) PA(_dl,-5)
elseif e==JP_AT:: PA(_jp_bond,a)
elseif comD[e][1]==_fuse::
if comD[e][2]<=6:: FFR(a)(parD[e][1])(comD[e][2])
elseif (comD[e][2]>=11)and(comD[e][2]<=15):: FRR(a)(parD[e][1])(comD[e][2])
fi
fi
elseif color e:: color_list[incr cntC]:=e; PX(a)(_set_colorB,cntC)
fi fi
sub_int %------- Retern value -------
enddef;
%-------------------------------------------------------------------------------------------------
vardef change_atom(expr a)(expr e)=
sub_int:=sub_int+1;
cntD[sub_int]:=0;
if known e:: if numeric e::
if (e>=H)and(e<=U):: if e==N:: PP(a)(_N) elseif e==O:: PP(a)(_O) elseif e==S:: PP(a)(_S)
else:: PX(a)(_chg_atom,e)
fi
elseif e==NH:: PA(_set_clr,1) PP(a)(_N) PX(a)(_postH,H) PA(_set_clr,0)
elseif e==JP_AT:: PA(_jp_atom,a)
fi
elseif pair e:: PA(_set_clr,1) PX(a)(xpart(e),ypart(e)) PA(_set_clr,0)
elseif color e:: color_list[incr cntC]:=e; PX(a)(_set_colorA,cntC)
fi fi
sub_int %------- Retern value -------
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def ext_setup=
pickup pencircle scaled ext_defaultline;
dotlabeldiam:=3bp;
labeloffset:=3bp;
save em;
em=defaultscale*defaultsize;
if (defaultfont="draw")or(f_MP=0)or(sw_label_emu=1):
save label,dotlabel;
def label = label_emu enddef;
def dotlabel = dotlabel_emu enddef;
fi
if (sw_arrow=0)or(f_MP=0):
save drawarrow,drawdblarrow;
def drawarrow = drawarrow_emu enddef;
def drawdblarrow = drawdblarrow_emu enddef;
fi
enddef;
%--------------------------------------------------------------------------------------------------
def EXT(text TXT)=
begingroup
save w,h,wd,ht,n,p,am,aw;
pair p[];
ext_setup;
w:=font_wd;
h:=font_ht;
w0:=w-2margin_left_right;
h0:=h-2margin_top_bottom;
p0:=(margin_left_right,margin_top_bottom);
aw:=atom_wd;
n:=cntM;
for i=1 upto n: p[i]:=posM[1][i]; w[i]:=wdM[i]; h[i]:=htM[i]; endfor
TXT addto mol_stru[0] also currentpicture; clearit; f_ext:=1;
endgroup;
enddef;
%--------------------------------------------------------------------------------------------------
def ext(text TXT)=
begingroup
save w,h,n,l,p,am,aw,A,B;
numeric A[]dir,B[]dir;
pair p[],A[],B[],B[]s,B[]e;
ext_setup;
w:=mol_wd; h:=mol_ht; l:=bond_len; aw:=atom_wd;
p0:=(minX,minY); An:=cntA; Bn:=cntB;
for i=1 upto An: A[i]:=posA[i]; A[i]dir:=ang_br[i]; endfor
for i=1 upto Bn:
B[i]s:=posA[sB[i]]; B[i]e:=posA[eB[i]]; B[i]:=0.5[B[i]s,B[i]e]; B[i]dir:=angB[i];
endfor
TXT addto mol_stru[cntM] also currentpicture; clearit;
endgroup;
enddef;
%==================================================================================================
def ext_puts(expr a)(expr STR)=
begingroup
save cp,sA,pC;
pair cp;
string sA;
picture pC;
cp:=a;
nB:=defaultscale*defaultsize;
nC:=0;
%------------------------------------------------------------------------------------------------
for i=0 upto length(STR)-1:
sA:=pic_c(i,STR);
nA:=ASCII(sA);
if sw_label_emu=1:
if sA="_": if nC=-0.5: nC:=0; else: nC:=-0.5; fi
elseif sA="^": if nC= 0.5: nC:=0; else: nC:= 0.5; fi
else:
if defaultfont="draw":
draw_char(sA,cp+(0,nB*nC),nB,0.35*ratio_char_bond*bp,0);
cp:=cp+(nB*tbl_char_wd[nA],0);
else:
pC:=sA infont defaultfont scaled defaultscale;
addto currentpicture also pC shifted (cp+(0,nB*nC));
cp:=cp+(lrcorner pC-llcorner pC);
fi
fi
else: draw_char(sA,cp,nB,0.35*ratio_char_bond*bp,0);
cp:=cp+(nB*tbl_char_wd[nA],0);
fi
endfor
endgroup;
enddef;
%--------------------------------------------------------------------------------------------------
vardef label_emu@#(expr STR,POS) = %% modified 'thelabel@#(expr s,z)' of plain.mp
save oft,fx,fy,wds,sC,pC;
pair oft,oft.lft,oft.rt,oft.top,oft.bot,oft.ulft,oft.llft,oft.urt,oft.lrt;
string sC;
picture pC;
wds:=0;
for i=0 upto length(STR)-1:
sC:=pic_c(i,STR);
if not((sw_label_emu=1)and((sC="_")or(sC="^"))):
if (defaultfont="draw")or(f_MP=0):
wds:=wds+defaultscale*defaultsize*tbl_char_wd[ASCII(sC)];
else:
pC:=sC infont defaultfont scaled defaultscale;
wds:=wds+xpart(lrcorner pC-llcorner pC);
fi
fi
endfor
oft:= ( 0, 0); fx:=0.5; fy:=0.5;
oft.lft:= ( -1, 0); fx.lft:=1; fy.lft:=0.5;
oft.rt := ( 1, 0); fx.rt :=0; fy.rt :=0.5;
oft.bot:= ( 0, -1); fx.bot:=0.5; fy.bot:=1;
oft.top:= ( 0, 1); fx.top:=0.5; fy.top:=0;
oft.ulft:=(-.7, .7); fx.ulft:=1; fy.ulft:=0;
oft.urt:= ( .7, .7); fx.urt:=0; fy.urt:=0;
oft.llft:=(-.7,-.7); fx.llft:=1; fy.llft:=1;
oft.lrt:= ( .7,-.7); fx.lrt:=0; fy.lrt:=1;
ext_puts(POS+(labeloffset*oft@#)-(wds*fx@#,defaultscale*defaultsize*fy@#))(STR);
enddef;
%-------------------------------------------------------------------------------------------------
vardef dotlabel_emu@#(expr STR,POS)=
label_emu@#(STR,POS);
draw POS withpen pencircle scaled dotlabeldiam;
enddef;
%==================================================================================================
def drawarrow_emu expr PAT = arrow_path:=PAT; draw_arrow enddef;
%-------------------------------------------------------------------------------------------------
def draw_arrow text t = %% modified 'drawarrow' of plain.mp
filldraw arrow_head rotated ahead_angle(reverse arrow_path)
shifted point infinity of arrow_path t;
draw arrow_path t
enddef;
%-------------------------------------------------------------------------------------------------
def drawdblarrow_emu expr PAT = arrow_path:=PAT; draw_dblarrow enddef;
%-------------------------------------------------------------------------------------------------
def draw_dblarrow text t =
filldraw arrow_head rotated ahead_angle(arrow_path) shifted point 0 of arrow_path t;
filldraw arrow_head rotated ahead_angle(reverse arrow_path)
shifted point infinity of arrow_path t;
draw arrow_path t
enddef;
%-------------------------------------------------------------------------------------------------
arrow_head:=(ahlength,-(sind 0.5ahangle)*ahlength)--(0,0)--
(ahlength, (sind 0.5ahangle)*ahlength)--cycle;
%-------------------------------------------------------------------------------------------------
def ahead_angle(expr p) =
angle direction .5ahlength/length(point 1 of p - point 0 of p) of p
enddef;
%=================================================================================================
def sub_add(expr a,b)=
cntD[sub_int]:=cntD[sub_int]+1; comD[sub_int][cntD[sub_int]]:=a; parD[sub_int][cntD[sub_int]]:=b;
enddef;
%-------------------------------------------------------------------------------------------------
def sub_add_op(expr a,b)=
op_cnt[cntP]:=op_cnt[cntP]+1; op_com[cntP][op_cnt[cntP]]:=a; op_par[cntP][op_cnt[cntP]]:=b;
enddef;
%-------------------------------------------------------------------------------------------------
def sub_pro(expr c)(expr a)=
if c>=sub_int_start:: for i==1 upto cntD[c]:: sub_add(a,parD[c][i]) endfor
else:: sub_add(a,c) fi
enddef;
%-------------------------------------------------------------------------------------------------
def sub_ext(expr c)(expr a,b)=
if c>=sub_int_start::
for i==1 upto cntD[c]::
if comD[c][i]<>_numeric:: sub_add(comD[c][i],parD[c][i])
else:: sub_add(_set_adr,parD[c][i]) sub_add(a,b) fi
endfor
else:: sub_add(_set_adr,c) sub_add(a,b) fi
enddef;
%=================================================================================================
def MCa(expr FW,FH)(text s)= MCd(1,1)(FW,FH)(s) enddef;
def MCc(expr RW,RH)(text s)= MCd(RW,RH)(0.5,0.5)(s) enddef;
def MCf(text s)= MCd(1,1)(0.5,0.5)(s) enddef;
%-------------------------------------------------------------------------------------------------
def MCd(expr RW,RH)(expr FW,FH)(text TX)=
begingroup
save com,par,adrA,adrB,f_bra,envT,envB,lenT,lineT,strAT,stkA,stkB,stkL,stkM,cntP,bondL,temp_len,
temp_cntB,f_end,f_term,rotT,adrS,f_at,f_lineT,f_rotT,f_lenT,f_envT,angT,tempB,glu,xpos,ypos,
str_len,max_x,max_y,par_s,par_e,score_u,hat,f_char,ps_adr,ps_com,op_com,op_par,op_cnt,crR,
colorA,colorB,PA,PO,PP,PX;
%-----------------------------------------------------------------------------------------------
def PA= sub_add enddef;
def PO= sub_add_op enddef;
def PP= sub_pro enddef;
def PX= sub_ext enddef;
%-----------------------------------------------------------------------------------------------
numeric stkB[],stkA[],stkL[],stkM[],f_char[],ps_adr[],ps_com[],colorA[],colorB[],
op_com[][],op_par[][],op_cnt[];
%-----------------------------------------------------------------------------------------------
if (sw_numberA>=1)or(sw_numberB>=1): ratio_atom_bond:=0.25; fi
if (sw_expand=1)or(sw_MOLout=1): expand_set; fi
sub_usr:=sub_usr_start;
sub_int:=sub_int_start;
par_s:=ASCII("{"); par_e:=ASCII("}"); score_u:=ASCII("_"); hat:=ASCII("^");
cntA:=cntB:=cntP:=cntC:=0; strD[0]:=""; str_cnt:=2000; crR:=-ratio_chain_ring;
%===============================================================================================
''(0)(TX,(_term,0));
proc_bond_atom(1);
if (cntP>0)and(sw_subst_off=0): ps_get(1); fi
char_use_check;
if sw_solid=1: bond_len:=font_wd*ratio_bond_width;
proc_size_setup; proc_skeleton; proc_scaling;
elseif sw_solid=2: proc_size_setup; proc_skeleton; proc_scaling;
else:
bond_len:=3mm; proc_size_setup;
for i=1 upto 6: proc_skeleton; proc_scaling;
if (mol_ht/mol_wd)>(font_ht/font_wd): factor:=(font_ht*RH-2margin_top_bottom)/mol_ht;
else: factor:=(font_wd*RW-2margin_left_right)/mol_wd; fi
exitif factor=1;
bond_len:=bond_len*factor; proc_size_setup;
endfor
if bond_len>max_bond_length:
bond_len:=max_bond_length; proc_size_setup; proc_skeleton; proc_scaling; fi
fi
%-----------------------------------------------------------------------------------------------
for i=1 upto cntB: if lineB[i]<si_ : draw_bond(i,sB[i],eB[i],angB[i],lineB[i]); fi endfor
for i=1 upto cntB: if lineB[i]>=si_: draw_bond(i,sB[i],eB[i],angB[i],lineB[i]); fi endfor
%-----------------------------------------------------------------------------------------------
for i=1 upto cntA:
if (sw_numberA>=1)and(i>=numberA_start)and(i<=numberA_end):
if sw_numberA=2: nA:=i-numberA_start+1;
elseif sw_numberA=3: if numberA_end<cntA: nA:=numberA_end-i+1; else: nA:=cntA-i+1; fi
else: nA:=i; fi
if i<10: draw_atom(i,posA[i],0,decimal(nA),1);
else: draw_atom(i,posA[i]+(-.2atom_wd,0),0,decimal(nA),1); fi
elseif sw_numberB>=1:
else: draw_atom(i,posA[i],ang_br[i],strD[numS[i]],tbl_str_wd[numS[i]]); fi
endfor
%-----------------------------------------------------------------------------------------------
sftX:=margin_left_right-minX+(font_wd-mol_wd-2margin_left_right)*FW;
sftY:=margin_top_bottom-minY+(font_ht-mol_ht-2margin_top_bottom)*FH;
posM[0][incr cntM]:=(sftX,sftY);
posM[1][cntM]:=(minX+sftX,minY+sftY);
posM[2][cntM]:=(max_x+sftX,max_y+sftY);
wdM[cntM]:=mol_wd;
htM[cntM]:=mol_ht;
if sw_mol_frame=1: draw_frame((minX,minY),mol_wd,mol_ht,thickness_font_frame) fi
addto mol_stru[cntM] also currentpicture;
clearit;
endgroup;
if ((sw_auxout=1)or(sw_report=1)or(sw_MOLout=1))and(f_MP=1): proc_calc_out; fi
%-----------------------------------------------------------------------------------------------
%%%% message "count of usr ="& decimal(sub_usr) &" "& decimal(sub_usr-sub_usr_start);
%%%% message "count of int ="& decimal(sub_int) &" "& decimal(sub_int-sub_int_start);
%-----------------------------------------------------------------------------------------------
enddef;
%-------------------------------------------------------------------------------------------------
def ps_put(expr n,p)=
ps_adr[incr cntP]:=n; ps_com[cntP]:=p; op_cnt[cntP]:=0;
if lineT<>0: PO(_tmp_line,lineT) fi
if rotT<>0: PO(_rot_ang,rotT) fi
if lenT<>crR: PO(_chg_len,lenT) fi
if envT<>hz: PO(_chg_env,envT) fi
if lineT=nl: PO(_chg_len,_size_a) PO(_adj_ang,0) fi
if lineT<>0: PO(_mk_bond,0) fi
if f_lineT=0: lineT:=si; fi
if f_lenT=0: lenT:=crR; fi
if f_rotT=0: rotT:=0; fi
if f_envT=0: envT:=hz; fi
enddef;
%-------------------------------------------------------------------------------------------------
def ps_get(expr n)=
save sub_int;
sub_int:=0;
nA:=cntP;
nB:=cntD[0];
for i=n upto cntP:
PA(_jp_atom_abs,ps_adr[i]) PA(_push,1)
for j=1 upto op_cnt[i]: PA(op_com[i][j],op_par[i][j]) endfor
for j=1 upto cntD[ps_com[i]]: PA(comD[ps_com[i]][j],parD[ps_com[i]][j]) endfor
PA(_pop,1) PA(_term,0)
endfor
proc_bond_atom(nB+1); if cntP>nA: ps_get(nA+1); fi
enddef;
%-------------------------------------------------------------------------------------------------
def draw_frame(expr PS,LX,LY,PN)=
draw ((0,0)--(LX,0)--(LX,LY)--(0,LY)--cycle) shifted PS wpss PN;
enddef;
%-------------------------------------------------------------------------------------------------
def draw_corner(expr LX,LY,PN)=
drawdot(0,0) wpss PN; drawdot(LX,0) wpss PN; drawdot(LX,LY) wpss PN; drawdot(0,LY) wpss PN;
enddef;
%-------------------------------------------------------------------------------------------------
def proc_size_setup=
if (bond_len*ratio_atom_bond+offset_atom)<.8bond_len:
atom_wd:=bond_len*ratio_atom_bond+offset_atom;
else: atom_wd:=.8bond_len; ratio_chain_ring:= .5; fi
wedge_wd:= bond_len*ratio_wedge_bond+offset_wedge;
zebra_gap:= bond_len*ratio_zebragap_bond+offset_zebra_gap;
bondgap:= bond_len*ratio_bondgap_bond+offset_bond_gap;
bond_pen_wd:= bond_len*ratio_thickness_bond+offset_thickness;
enddef;
%-------------------------------------------------------------------------------------------------
def proc_scaling=
minX:=minY:=4095.999;
max_x:=max_y:=-4095.999;
for i=1 upto cntA:
xpos:=xpart(posA[i]); ypos:=ypart(posA[i]);
if numS[i]<>0: str_len:=nC:=nD:=0;
for j=0 upto length(strD[numS[i]])-1:
nA:=ASCII(pic_c(j,strD[numS[i]]));
if (nA=score_u)or(nA=hat)or(nA=par_s)or(nA=par_e):
if (nA=hat)and(nC<.5atom_wd): nC:=.5atom_wd; fi;
if (nA=score_u)and(nD<.5atom_wd): nD:=.5atom_wd; fi;
else: str_len:=str_len+atom_wd*tbl_char_wd[nA]; fi
endfor
str_ang:=(ang_br[i] mod 360); nF:=str_len;
if (str_ang<=91)or(str_ang>=269): nF:=0; else: str_len:=0; fi
if (xpos-nF+.5atom_wd)<minX: minX:=xpos-nF+.5atom_wd;
elseif (xpos+str_len-.5atom_wd)>max_x: max_x:=xpos+str_len-.5atom_wd; fi
if (ypos-nD-.5atom_wd)<minY: minY:=ypos-nD-.5atom_wd;
elseif (ypos+nC+.5atom_wd)>max_y: max_y:=ypos+nC+.5atom_wd; fi
else: if xpos<minX: minX:=xpos; elseif xpos>max_x: max_x:=xpos; fi
if ypos<minY: minY:=ypos; elseif ypos>max_y: max_y:=ypos; fi fi
endfor
mol_wd:=max_x-minX; mol_ht:=max_y-minY;
enddef;
%-------------------------------------------------------------------------------------------------
def char_use_check=
for i=1 upto 128: f_char[i]:=0; endfor
if (sw_numberA<>0)or(sw_numberB<>0):
for j=ASCII("0") upto ASCII("9"): f_char[j]:=1; endfor
else:
for i=1 upto cntA:
if numS[i]<>0:
for j=0 upto length(strD[numS[i]])-1: f_char[ASCII(pic_c(j,strD[numS[i]]))]:=1; endfor
fi
endfor
fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def proc_bond_atom(expr n)=
f_bra:=f_end:=f_term:=rotT:=adrS:=f_lineT:=f_rotT:=f_lenT:=f_envT:=envT:=envB:=strAT:=f_at:=0;
stkL[0]:=bondL:=crR; lenT:=crR; sB[0]:=0; eB[0]:=1; lineT:=si;
for i=0 upto 5: stkA[i]:=stkB[i]:=0; endfor
%-----------------------------------------------------------------------------------------------
for i=n upto cntD[0]:
com:=comD[0][i];
par:=parD[0][i];
if com=_push:
if par=1: stkL[adrS]:=bondL; stkA[incr adrS]:=adrA:=cntA; stkB[adrS]:=adrB:=cntB;
elseif par=0: temp_len:=bondL; fi
elseif com=_pop: if par=1: adrA:=stkA[decr adrS]; adrB:=stkB[adrS]; bondL:=stkL[adrS];
elseif par=0: bondL:=temp_len; fi
elseif com=_mk_bond: if (par=0)and(rotT<>0): rotT:=0; fi add_atom;
elseif com=_set_adr: adrT:=par;
elseif com=_set_atom: strAT:=par;
elseif com=_postA: if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postB: lineT:=dm; if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postC: lineT:=wf; if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postD: lineT:=zf; if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postE: lineT:=nl; if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postF: lineT:=0; if f_at=1: ps_put(getA(adrT),par); else: ps_put(cntA+1,par); fi
elseif com=_postH: lineT:=nl; lenT:=_size_a; ps_put(getA(adrT),par);
elseif com=_jp_bond: termA; tempB:=getB(par); sB[cntB+1]:=sB[tempB]; f_bra:=1;
elseif com=_jp_atom: termA; sB[cntB+1]:=getA(par); f_bra:=1;
elseif com=_jp_atom_abs: sB[cntB+1]:=par; f_bra:=1; temp_cntB:=cntB;
elseif com=_chg_atom: numS[getA(adrT)]:=parD[par][1];
elseif com=_N: numS[getA(par)]:=parD[N][1];
elseif com=_O: numS[getA(par)]:=parD[O][1];
elseif com=_S: numS[getA(par)]:=parD[S][1];
elseif com=_H: ps_put(getA(par),H);
elseif com=_chg_len: if par=_ring_len: bondL:=ringL;
elseif par=0: if lenT<>crR: bondL:=lenT; else: if bondL<0: bondL:=1; fi fi
else: bondL:=par; fi
elseif com=_get_len: if par=0: if bondL=crR: bondL:=lenT; fi else: ringL:=lenB[getB(par)]; fi
elseif com=_tmp_len: lenT:=par;
elseif com=_set_line: lineB[getB(adrT)]:=par;
elseif com=_dl: lineB[getB(par)]:=dl;
elseif com=_mb: lineB[getB(-1)]:=par;
elseif (com=_chg_line)or(com=_tmp_line): lineT:=par;
elseif com=_tmp_rot: rotT:=par;
elseif com=_cyc: f_end:=getA(par); add_atom;
elseif com=_cyc_eB: f_end:=eB[getB(par)]; add_atom;
elseif com=_cyc_sB: f_end:=sB[getB(par)]; add_atom;
elseif com=_chg_env: envB:=par;
elseif com=_tmp_env: envT:=par;
elseif com=_set_clr:
f_at:=par;
if par=1: if lineT<>si: f_lineT:=1; fi if rotT<>0: f_rotT:=1; fi
if lenT<>crR: f_lenT:=1; fi if envT<>hz: f_envT:=1; fi
elseif par=0: f_lineT:=f_rotT:=f_lenT:=f_envT:=rotT:=envT:=0; lineT:=si; lenT:=crR;
fi
elseif com=_stack_reset: stkA[adrS+1]:=0;
elseif com=_term: termA;
elseif com=_set_colorA: colorA[getA(adrT)]:=par;
elseif com=_set_colorB: colorB[getB(adrT)]:=par;
fi
endfor
enddef;
%-------------------------------------------------------------------------------------------------
def add_atom=
lineB[incr cntB]:=lineT;
lineT:=si;
if lenT=crR: lenB[cntB]:=bondL; else: lenB[cntB]:=lenT; lenT:=crR; fi
if f_bra=0: cntA:=cntA+1; sB[cntB]:=cntA; numS[cntA]:=strAT; strAT:=0;
if f_MP=1: colorA[cntA]:=colorB[cntA]:=0; fi else: f_bra:=0; fi
if f_end=0: eB[cntB]:=cntA+1; f_term:=0; else: eB[cntB]:=f_end; f_end:=0; f_term:=1; fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def proc_skeleton=
adrA:=adrB:=cntA:=cntB:=angT:=adrS:=f_end:=f_bra:=rotT:=f_term:=f_at:=0;
envT:=envB:=f_lineT:=f_rotT:=f_lenT:=f_envT:=stkM[0]:=0; lineT:=si;
angA[0]:=angB[0]:=ang_br[0]:=0; posA[0]:=posBs:=posBe:=(0,0);
for i=0 upto 5: stkA[i]:=stkB[i]:=0; endfor
%----------------------------------------------------------------------------------------------
for i=1 upto cntD[0]:
com:=comD[0][i]; par:=parD[0][i];
if com=_push: if par=1: stkM[adrS]:=envB; adrS:=adrS+1; stkA[adrS]:=adrA:=cntA;
stkB[adrS]:=adrB:=cntB;
elseif par=0: temp_len:=bondL; fi
elseif com=_pop: if par=1: adrA:=stkA[decr adrS]; adrB:=stkB[adrS]; envB:=stkM[adrS];
elseif par=0: temp_len:=bondL; fi
elseif com=_jp_bond: termB; tempB:=getB(par); posBs:=posA[sB[tempB]];
angT:=angB[tempB]; f_bra:=1; rotT:=0;
elseif com=_jp_atom: termB; adrT:=getA(par); posBs:=posA[adrT];
angT:=ang_br[adrT]; f_bra:=1; rotT:=0;
elseif com=_jp_atom_abs: adrT:=par; posBs:=posA[adrT];
angT:=ang_br[adrT]; f_bra:=1; rotT:=0; temp_cntB:=cntB;
elseif com=_adj_ang: if (angT<40)or(angT>320): angT:=0; elseif angT<140: angT:=90;
elseif angT<220: angT:=180; else: angT:=270; fi
elseif com=_mk_bond: if (par=0)and(rotT<>0):par:=rotT; rotT:=0; fi add_bond(par);
elseif com=_rot_ang: angT:=(angT+par) mod 360;
elseif com=_tmp_rot: rotT:=par;
elseif (com>=_postA)and(com<=_postH): rotT:=0;
elseif com=_chg_env: envB:=par;
elseif com=_tmp_env: envT:=par;
elseif com=_set_clr: f_at:=par; if par=0: lineT:=si; lenT:=crR; rotT:=envT:=0; fi
elseif com=_cyc: f_end:=1; proc_cyc(getA(par));
elseif com=_cyc_sB: f_end:=1; proc_cyc(sB[getB(par)]);
elseif com=_cyc_eB: f_end:=1; proc_cyc(eB[getB(par)]);
elseif com=_term: termB;
elseif com=_stack_reset: stkA[adrS+1]:=0;
fi
endfor
enddef;
%-------------------------------------------------------------------------------------------------
def add_bond(expr m)=
if m=_arg_ang: nA:=proc_env(angT,envB,60,-60); else: nA:=m; fi
if f_bra=0:
adrT:=cntA:=cntA+1; posA[cntA]:=posBs; angA[cntA]:=angT;
if nA>=0: ang_br[cntA]:=angT+nA/2-90; else: ang_br[cntA]:=angT+nA/2+90; fi
else: f_bra:=0;
fi
angB[cntB+1]:=angT:=(angT+nA) mod 360;
if f_end=0:
if lenB[cntB+1]=_size_a: posBe:=sfB(posBs,atom_wd,angT);
else:
nA:=lenB[cntB+1]; glu:=0; if nA<0: nA:=-nA; glu_c(adrT); glu_c(cntA+1); fi
posBe:=sfB(posBs,nA*bond_len+glu,angT);
fi
posA[cntA+1]:=posBe; f_term:=0;
else:
f_end:=0; f_term:=1;
fi
cntB:=cntB+1; posBs:=posBe;
enddef;
%==================================================================================================
vardef getA(expr n)=
if n>=0: stkA[adrS+1]+n elseif n>=-999: cntA+n+1 else: stkA[adrS]+n+4095 fi enddef;
vardef getB(expr n)=
if n>=1: stkB[adrS+1]+n elseif n=0: tempB elseif n>=-999: cntB+n+1 else: stkB[adrS]+n+4095 fi
enddef;
def termA= if f_term=0: if f_bra=0: numS[incr cntA]:=strAT; strAT:=0;
if f_MP=1: colorA[cntA]:=0; fi else: f_bra:=0; fi f_term:=1; fi enddef;
def termB=
if f_term=0: if f_bra=0: ang_br[incr cntA]:=angT; else: f_bra:=0; fi f_term:=1; fi enddef;
def proc_cyc(expr n)= add_bond(angle(posA[n]-posBs)-angT); enddef;
def glu_c(expr n)= if numS[n]<>0: nB:=angT mod 180; nC:=.5tbl_str_wd[numS[n]]*atom_wd;
if (nB<45)or(nB>135):glu:=glu+((sind(nB)*nC)++nC);
else :glu:=glu+((cosd(nB)*.5atom_wd)++.5atom_wd) fi fi
enddef;
vardef proc_env(expr n,m,a,b)= r:=(n mod 360);
if m>=sub_emb_start: parD[m][cntB-temp_cntB] else:
if m=hz:if r=0:a elseif r<=90:b elseif r<=180:a elseif r<270:b else:a fi
elseif m=vt:if r=0:b elseif r<90:a elseif r<=180:b elseif r<=271:a else:b fi
elseif (m>=-180)and(m<=180): m fi fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def draw_atom(expr NUM,POS,ANG,STR,WD)=
begingroup
save pA,pT,dx,pC,nE,nC;
string sB;
pair pA,pT;
picture pC;
%----------------------------------------------------------------------------------------------
if ((ANG mod 360)<=90+1)or((ANG mod 360)>=270-1): dx:=1; else: dx:=-1; fi
pT:=POS-(0.5atom_wd*dx*WD,0.5atom_wd);
nE:=nC:=0;
for i=0 upto length(STR)-1:
sB:=pic_c(i,STR); nB:=ASCII(sB);
if dx<0: if nB=par_s: k:=i+1; nC:=1; forever: exitif pic_c(i+(incr nC),STR)="}";endfor fi
if nC>0: sB:=pic_c(k+(decr nC),STR); nB:=ASCII(sB); fi
fi
if nB=score_u: if nE=0: nE:=-.5; else: nE:=0; fi;
elseif nB=hat: if nE=0: nE:= .5; else: nE:=0; fi;
elseif (nB<>par_s)and(nB<>par_e):
nA:=atom_wd*tbl_char_wd[nB];
if (atomfont<>"draw")and(f_MP=1):
pC:=sB infont atomfont scaled (atom_wd/atomfontsize);
if dx=-1: pA:=pT-(lrcorner pC-llcorner pC)+(0,nE*atom_wd);
else: pA:=pT+(0,nE*atom_wd);
fi
if (sw_numberA>=1)or(sw_numberB>=1):
erase fill (llcorner pC--lrcorner pC--urcorner pC--ulcorner pC--cycle) shifted pA;
fi
addto currentpicture also pC shifted pA Cp(colorA[NUM]);
if sw_atom_frame=1:
draw ((llcorner pC--lrcorner pC--urcorner pC--ulcorner pC--cycle) shifted pA)
withpen pencircle scaled 0.01pt;
fi
pT:=pT+(lrcorner pC-llcorner pC)*dx;
else:
if dx=-1: pA:=pT+(-nA,nE*atom_wd); else: pA:=pT+(0,nE*atom_wd); fi
if (sw_numberA>=1)or(sw_numberB>=1):
erase fill unitsquare xscaled nA yscaled atom_wd shifted pA;
fi
draw_char(sB,pA,atom_wd,bond_pen_wd*ratio_char_bond,NUM);
if sw_atom_frame=1: draw_frame(pA,nA,atom_wd,0.1pt); fi
pT:=pT+(nA*dx,0);
fi
fi
endfor
endgroup
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def draw_bond(expr NN,BP,EP,ANG,LN)=
begingroup
save ww,ap,am,hpt,Ls,Le,pA,pB,pC,pT;
pair Ls,Le;
path pA,pB,pC,pT;
%----------------------------------------------------------------------------------------------
nC:=length(posA[EP]-posA[BP]);
if (nC>0)and(LN<>0):
ww:=wedge_wd; hpt:=.5bond_pen_wd; ap:=ANG+90; am:=ANG-90;
if sw_numberB>=1: clipping(0,0,posA[BP],posA[EP],nC);
else: clipping(numS[BP],numS[EP],posA[BP],posA[EP],nC); fi
pickup pencircle scaled bond_pen_wd;
if known colorB[NN]: nB:=colorB[NN]; fi
%---------------------------------------------------------------------------------------------
if (LN=si)or(sw_bond_single=1): draw pA Cp(nB);
elseif LN=dl:draw pA Cp(nB); draw sfB(pC,bondgap,ap) Cp(nB);
elseif LN=dr:draw pA Cp(nB); draw sfB(pC,bondgap,am) Cp(nB);
elseif LN=dm:draw sfB(pB,bondgap/1.75,ap) Cp(nB); draw sfB(pB,bondgap/1.75,am) Cp(nB);
elseif LN=db:if ((ANG-ang_br[BP]) mod 360)<=180: nA:=ap; else: nA:=am; fi
draw pA Cp(nB); draw sfB(pC,bondgap,nA) Cp(nB);
elseif LN=tm:draw pA Cp(nB);draw sfB(pA,bondgap,ap) Cp(nB); draw sfB(pA,bondgap,am) Cp(nB);
elseif LN=wf:fill Ls--sfB(Le,ww,am)--sfB(Le,ww,ap)--cycle;
elseif LN=wb:fill sfB(Ls,ww,am)--Le--sfB(Ls,ww,ap)--cycle;
elseif LN=bd:draw pA withpen penrazor rotated ap scaled bondgap Cp(nB);
elseif LN=bz:bz_put(sfB(Ls,ww,ap),sfB(Le,ww,ap),sfB(Ls,ww,am),sfB(Le,ww,am),nB);
elseif LN=zf:wz_put(Ls,sfB(Le,ww,ap),sfB(Le,ww,am),nB);
elseif LN=zb:wz_put(Le,sfB(Ls,ww,am),sfB(Ls,ww,ap),nB);
elseif LN=dt:for i=0 step .75zebra_gap/length(Le-Ls) until 1: drawdot i[Ls,Le]; endfor
elseif LN=wv:nB:=3bond_pen_wd; nA:=nB/length(Le-Ls);
draw Le for i=1 upto 1/nA:
if odd(i): ..controls(((i-.5)*nA)[sfB(Le,nB,ap),sfB(Ls,nB,ap)])
else: ..controls(((i-.5)*nA)[sfB(Le,nB,am),sfB(Ls,nB,am)]) fi
..(i*nA)[Le,Ls] endfor ..Ls;
elseif LN=vf:draw pA Cp(nB);draw sfB(Le,bondgap,ANG-150)--Le--sfB(Le,bondgap,ANG+150) Cp(nB);
elseif LN=vb:draw pA Cp(nB);draw sfB(Ls,bondgap,ANG-30)--Ls--sfB(Ls,bondgap,ANG+30) Cp(nB);
elseif LN=si_:erase draw 0.15[Ls,Le]--0.85[Ls,Le] wpcs 0.8bondgap; draw pA Cp(nB);
elseif LN=wf_:erase fill sfB(0.15[Ls,Le],.5ww,ap)--sfB(0.15[Ls,Le],.5ww,am)--
sfB(0.85[Ls,Le],1.3ww,am)--sfB(0.85[Ls,Le],1.3ww,ap)--cycle;
fill Ls--sfB(Le,ww,am)--sfB(Le,ww,ap)--cycle;
elseif LN=wb_:erase fill sfB(0.15[Ls,Le],1.3ww,ap)--sfB(0.15[Ls,Le],1.3ww,am)--
sfB(0.85[Ls,Le],.5ww,am)--sfB(0.85[Ls,Le],.5ww,ap)--cycle;
fill sfB(Ls,ww,am)--Le--sfB(Ls,ww,ap)--cycle;
elseif LN=bd_:erase draw 0.15[Ls,Le]--0.85[Ls,Le] wpcs 1.6bondgap;
draw pA withpen penrazor rotated ap scaled bondgap Cp(nB);
fi
if (sw_numberB>=1)and(NN>=numberB_start)and(NN<=numberB_end):
if sw_numberB=2: nB:=NN-numberB_start+1;
elseif sw_numberB=3: if numberB_end<cntB: nB:=numberB_end-NN+1; else: nB:=cntB-NN+1; fi
else: nB:=NN; fi
draw_atom(NN,.5[posA[BP],posA[EP]],0,decimal(nB),1); fi
fi
endgroup
enddef;
%------------------------------------------------------------------------------------------------
def wpcs expr n= withpen pencircle scaled n enddef;
def wpss expr n= withpen pensquare scaled n enddef;
def sqr(expr WD,HT)= ((0,0)--(WD,0)--(WD,HT)--(0,HT)--cycle) enddef;
def sfB(expr p,l,r)= p shifted ((l,0) rotated r) enddef;
def wz_put(expr PA,PB,PD,CL)= nC:=length(Le-Ls);
for i=0 upto nC/zebra_gap:
nA:=zebra_gap*i/nC; nD:=(zebra_gap*i+ratio_zebra_black*zebra_gap)/nC;
if nD>((nC-zebra_gap)/nC): nD:=1; fi
fill nA[PB,PA]--nA[PD,PA]--nD[PD,PA]--nD[PB,PA]--cycle Cp(CL); endfor enddef;
def bz_put(expr PA,PB,PC,PD,CL)= nC:=length(Le-Ls);
for i=0 upto nC/zebra_gap:
nA:=zebra_gap*i/nC; nD:=(zebra_gap*i+ratio_zebra_black*zebra_gap)/nC;
fill nA[PB,PA]--nA[PD,PC]--nD[PD,PC]--nD[PB,PA]--cycle Cp(CL); endfor enddef;
def cut_off(expr p,w,h,s)=
p intersectionpoint sqr(w+.1h,1.1h) shifted (s-(.5(w+.1h),.5(1.1h))); enddef;
def clipping(expr SA,SB,PA,PB,LEN)=
pT:=PA--PB; nA:=0.6atom_wd/LEN;
if (SA=0)and(SB=0): Ls:=PA; Le:=PB; pA:=pB:=pT; pC:=0.1[PA,PB]--0.1[PB,PA];
elseif SA=0: Ls:=PA; Le:=cut_off(pT,atom_wd*tbl_str_wd[SB],atom_wd,PB);
pA:=Ls--Le; pB:=Ls--nA[PB,PA]; pC:=0.1[PA,PB]--Le;
elseif SB=0: Ls:= cut_off(pT,atom_wd*tbl_str_wd[SA],atom_wd,PA); Le:=PB;
pA:=Ls--Le; pB:=nA[PA,PB]--Le; pC:=Ls--(0.1)[PB,PA];
else: Ls:=cut_off(pT,atom_wd*tbl_str_wd[SA],atom_wd,PA);
Le:=cut_off(pT,atom_wd*tbl_str_wd[SB],atom_wd,PB);
pB:=nA[PA,PB]--nA[PB,PA]; pC:=pA:=Ls--Le; fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
sub_usr:=sub_emb_start;
%-------------------------------------------------------------------------------------------------
lr:='(60 for i==1 upto 10:: ,-60,60 endfor); rl:='(-60,lr);
def ring expr n= <((-180 DIV n)-90),(_chg_len,0),
for i==2 upto n:: ,(360 DIV n) endfor,(_cyc_sB,1-n) enddef;
for i=3 upto 20: ?[i]:='(|:,ring i,:|); endfor
Ph:=Ph1:='(?6,(_dl,-2),(_dl,-4),(_dl,-6)); Ph2:='(?6,(_dl,-1),(_dl,-3),(_dl,-5));
!:=!1:='((_mk_bond,_arg_ang)); !!:='(!,(_mb,db)); !!!:='(!,(_mb,tm)); !0:='(<180,180);
for i=2 upto 20: ![i]:='(|:,(_get_len,0),! for j==2 upto i::,! endfor,:|); endfor
Me:='(); Et:=!; Pr:=!2; Bu:=!3;
for i=4,5,6: for j=2 upto i-2: ?[i][j]:='((_fuse,i),(j,0)); endfor endfor
for i=5,6,7,8: for j=11 upto 15: ?[i][j]:='((_fuse,i),(j,0)); endfor endfor
%=================================================================================================
H :='("H");C:='("C");N:='("N");O:='("O");F:='("F");S:='("S");P:='("P");I:='("I");
Si:='("{Si}");Al:='("{Al}");Mg:='("{Mg}");Zn:='("{Zn}");As:='("{As}");Cu:='("{Cu}");
Ag:='("{Ag}");Au:='("{Au}");Sn:='("{Sn}");Cl:='("{Cl}");Br:='("{Br}");Li:='("{Li}");
Na:='("{Na}");Ca:='("{Ca}");Hg:='("{Hg}");Ni:='("{Ni}");Ti:='("{Ti}");U:='("U");
%-------------------------------------------------------------------------------------------------
R:='("R"); R1:='("{R^1^}"); R2:='("{R^2^}"); R3:='("{R^3^}"); R4:='("R^4^"); R5:='("{R^5^}");
JP_AT:='();
%-------------------------------------------------------------------------------------------------
plus:='("+"); minus:='("-"); HH:='("H{_2_}"); NH:='(N,*/*H); NnoH:='(); SO:='(S,//O);
SOO :='(S,//O^-35,//O^35); CHO:='("CHO"); OH:='("OH"); COOH:='("COOH"); CH2:='("C{H_2_}");
CH3:='("C{H_3_}"); CN:='("CN"); NH2:='("N{H_2_}"); NO2:='("N{O_2_}"); SH:='("SH");
SO3:='("S{O_3_}"); NMe:=N!:='(N,/Me); iPr:=Me!:='(/Me,60); tBu:='(/Me,/Me^60,60);
OMe:=O!:='(O,!); OEt:=O!2:='(O,!2); OPr:=O!3:='(O,!3); OiPr:=OMe!:='(O,!,iPr);
SMe:=S!:='(S,!); SEt:=S!2:='(S,!2); SPr:=S!3:='(S,!3); SiPr:=SMe!:='(S,!,iPr);
COOMe:=COO!:='(//O,!,O,!); COMe:=CO!:='(//O,!); COEt:=CO!2:='(//O,!2);
OCOMe:=OCO!:='(O,!,//O,!); COOEt:=COO!2:='(//O,!,O,!2);
COOiPr:=COOMe!:='(//O,!,O,!,iPr); COOPr:=COO!3:='(//O,!,O,!3);
COOtBu:='(//O,!,O,!,tBu); NMeMe:=NMe!:='(N,/Me,!); NHCOMe:=NHCO!:='(NH,!,//O,!);
NHiPr:=NHMe!:='(NH,!,iPr); NHtBu:='(NH,!,tBu); NHH:='(N,/H,!,H);
NHMe:=NH!:='(NH,!); NHEt:=NH!2:='(NH,!2); !NH!:='(!,NH,!); !CO!:='(!,//O,!);
!OH:='(!,OH); !SH:='(!,SH); !NH2:='(!,NH2); !OMe:=!O!:='(!,OMe); !COOH:='(!,COOH);
!CH3:='(!,"C{H_3_}"); !CN:='(!,CN); !iPr:=!Me!:='(!,iPr); !tBu:='(!,tBu); !Ph:='(!,Ph);
!?3:='(!,?3); !?4:='(!,?4); !?5:='(!,?5); !?6:='(!,?6);
CF2:='(/F,60,F); CCl2:='(/Cl,60,Cl); CBr2:='(/Br,60,Br); CF3:='(/F,/F^60,60,F);
CCl3:='(/Cl,/Cl^60,60,Cl);CBr3:='(/Br,/Br^60,60,Br);O_H:='(O,!,H);CO_H:='(//O,!,H);
%==================================================================================================
CO_OH:='(//O,!,O,!,H); C_N:='(!~tm,N); N_HH:='(N,/H,60,H); N_OO:='(N,//O,60~dm,O);
S_H:='(S,!,H); N_H:='(N,/H); C_HHH:='(/H,/H^60,60,H);
%--------------------------------------------------------------------------------------------------
%%%%%%message "count of sub_usr =" & decimal(sub_usr);
%--------------------------------------------------------------------------------------------------
def expand_set=
save CH,NH,NO,OH,CHO,COOH,CN,SH;
CH3:=C_HHH; NH:=N_H; NH2:=N_HH; NO2:=N_OO; OH:=O_H; CHO:=CO_H; COOH:=CO_OH; CN:=C_N; SH:=S_H;
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def char_size_set(expr a)(expr b)(expr s)=
for j=0 upto length(s)-1: nA:=ASCII(pic_c(j,s));
tbl_char_wd[nA]:=a; tbl_char_ht[nA]:=b;
endfor
enddef;
%---------------------------------------------------------------
char_size_set( 1)( 1)("CGHMNOQ");
char_size_set(.9)( 1)("ABDEFIJKLPRSTUVWXYZ-+/><m");
char_size_set(.7)( 1)(" ()[]0123456789nhj=_bdtfgpq");
char_size_set(.7)(.7)("*");
char_size_set(.5)( 1)("il");
char_size_set(.7)(.8)("acekosuvxzwry");
char_size_set(.4)( 1)(".,:;'`^");
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def draw_char(expr c,POS,WD,PEN,NUM)=
save Z,aW,aH,fW,fH,hW,hW,hH,fP,hP,pathO,pathOh,ef,pos,ppcs,sbp,dw,dwh,dwv,cdw;
path pathO,pathOh;
pair Z[],pos;
%-------------------------------------------------------------------------------------------------
let ef=elseif;
def ppcs expr n= pickup pencircle scaled n enddef;
def sbp(expr m,n)expr p=subpath(m*length(p),n*length(p)) of p enddef;
def dw expr p = draw (p) shifted pos Cp(colorA[NUM]) enddef;
def dwv expr p = draw (p) withpen penrazor scaled fP shifted pos Cp(colorA[NUM]) enddef;
def dwvs (expr n)expr p=
draw (p) withpen penrazor scaled fP scaled n shifted pos Cp(colorA[NUM]) enddef;
def dwh expr p=draw (p) withpen penrazor rotated 90 scaled fP shifted pos Cp(colorA[NUM]) enddef;
def cdw expr p=cutdraw (p) shifted pos Cp(colorA[NUM]) enddef;
%-------------------------------------------------------------------------------------------------
fP:=PEN; hP:=0.5fP;
aW:=WD*tbl_char_wd[ASCII(c)]*(1-2ratio_atomgap_atom);
aH:=WD*tbl_char_ht[ASCII(c)]*(1-2ratio_atomgap_atom);
pos:=POS+(WD*ratio_atomgap_atom,WD*ratio_atomgap_atom);
fW:=aW-hP; hW:=.5aW; fH:=aH-hP; hH:=.5aH;
Z01:=( 0,hP); Z02:=(hP, 0); Z03:=(hP,hP); Z04:=(aW,hP); Z05:=(fW, 0); Z06:=(hW,aH); Z07:=(hW, 0);
Z08:=( 0,hH); Z09:=(hP,hH); Z10:=(fW,hH); Z11:=(hW,aW); Z12:=( 0,fH); Z13:=(hP,fH); Z14:=(hW,fH);
Z15:=(fW,aH); Z16:=(aW,fH); Z17:=(aW,hH); Z18:=(hP,aH); Z19:=(hW,hP); Z20:=(hW,hH); Z21:=(fW,hP);
pathO:=Z10..(.8aW,fH)..tension 1.5..(.2aW,fH)..Z09..(.2aW,hP)..tension 1.5..(.8aW,hP)..cycle;
pathOh:=(hP,.25aH)..Z19..(fW,.25aH)..Z20..cycle;
%-------------------------------------------------------------------------------------------------
ppcs fP;
if c="A": dwvs(1.14) Z02--Z06--Z05; dw .33[Z02,Z06]--.33[Z05,Z06];
ef c="B": dw Z13--Z14{right}..(.9fH,.75aH)..{left}Z20--Z09--Z20{right}..(.9fH,.25aH)..
{left}Z19--Z03; dwv Z02--Z18;
ef c="C": cdw sbp(.05,.95)pathO;
ef c="D": dw Z13--Z14..Z10..Z19--Z03; dwv Z02--Z18;
ef c="E": pickup pensquare scaled fP; dw Z21--Z03--Z13--(fW,fH); dw Z09--Z10;
ef c="F": dwh Z12--Z16; dwh (0,.45aH)--(fW,.45aH); dw Z02--Z13;
ef c="G": cdw sbp(.06,.97)pathO; dwh bot Z20-- bot Z17;
ef c="H": dwv Z02--Z18; dw Z09--Z10; dwv Z05--Z15;
ef c="I": dwv Z19--Z14; dwh (hW-fP,hP)--(hW+fP,hP); dwh (hW-fP,fH)--(hW+fP,fH);
ef c="J": cdw Z09..(hP,.4aH){down}..{right}Z19{right}..{up}(fW,.4aH)..Z15;
ef c="K": cdw Z02--Z18; cdw .5[.45[Z02,Z18],Z16]--Z05; cdw .45[Z02,Z18]--Z16;
ef c="L": dwh Z04--Z01; dwv Z02--Z18;
ef c="M": dwv Z02--Z18; dwvs(1.14) Z18--Z19--Z15; dwv Z15--Z05;
ef c="N": dwv Z02--Z18; dwv Z05--Z15; dwvs(1.4) (1.4hP,aH)--(aW-1.4hP,0);
ef c="O": dw pathO;
ef c="P": dwv Z02--Z18; dw Z13--(.3aW,fH){right}..(fW,.7aH)..{left}(.3aW,.44aH)..(hP,.44aH);
ef c="Q": dw pathO; dw (.6aW,.4aH)--Z05;
ef c="R": dwv Z02--Z18; dw Z13--(.3aW,fH){right}..(fW,.7aH)..{left}(.3aW,.44aH)..(hP,.44aH);
cdw Z05{up}..{left}(hW,.44aH);
ef c="S": cdw sbp(.05,.45)pathO; cdw sbp(.55,.95)pathO; dw (fW,.3aH){up}..{up}(hP,.7aH);
ef c="T": dwh Z12--Z16; dwv .5[Z12,Z16]--Z07;
ef c="U": cdw Z18..Z09{down}..{right}Z19{right}..{up}Z10..Z15;
ef c="V": dwvs(1.2) Z18--Z07--Z15;
ef c="W": dwvs(1.08) Z18--(.25aW,0)--Z06--(.75aW,0)--Z15;
ef c="X": dwvs(1.4) Z18..Z05; dwvs(1.4) Z02..Z15;
ef c="Y": dwvs(1.2) Z18--Z20--Z15; dwv Z20--Z07;
ef c="Z": dwh Z12--Z16; dwvs(1.4) (1.4hP,fP)--(aW-1.4hP,aH-fP); dwh Z01--Z04;
ef c="a": dw Z19..Z10..Z14..Z09..cycle; dwv Z05--Z15;
ef c="b": dw Z19..Z10..Z11..Z09..cycle; dwv Z02--(hP,1.2aH)
ef c="c": cdw sbp(.06,.94)Z10..Z14..Z09..Z19..cycle;
ef c="d": dw Z19..Z10..Z11..Z09..cycle; dwv Z05--(fW,1.2aH);
ef c="e": cdw sbp(0,.92)Z10..Z14..Z09..Z19..cycle; dw Z10--Z09;
ef c="f": cdw (hW,0)--(hW,.75aH){up}..(.75aW,fH)..{down}(fW,.8aH); dwh Z08--Z17;
ef c="g": dw Z19..Z10..Z11..Z09..cycle; cdw (Z15--Z21..(hW,0)..(.1aW,fP)) shifted (0,-.3aH);
ef c="h": dw Z02..(hP,.3aH){up}..(hW,.7fH)..{down}(fW,.3aH)..Z05; dwv (hP,.3aH)--Z18;
ef c="i": dwv Z07--(hW,.63aH); ppcs 1.4fP; dw Z14;
ef c="j": dwv Z19--(hW,.63aH); dw Z19..(.25aW,-hP)..Z01; ppcs 1.4fP; dw Z14;
ef c="k": dwv Z02--Z18; cdw .5[.45[Z02,Z18],Z16]--Z05; cdw .45[Z02,Z18]--Z16;
ef c="l": dwv Z07--Z06; dwh Z14--Z13; dwh Z19--Z21;
ef c="m": cdw Z02..(hP,.3aH){up}..(.28aW,.7fH)..{down}(hW,.3aH)..Z07;
cdw (hW,.3aH){up}..(.7aW,.7aH-hP)..{down}(fW,.3aH)..Z05; dwv (hP,.3aH)--(hP,.7aH);
ef c="n": cdw Z02..(hP,.3aH){up}..(hW,.7fH)..{down}(fW,.3aH)..Z05; dwv (hP,.3aH)--(hP,.7aH);
ef c="o": dw Z19..Z10..Z14..Z09..cycle;
ef c="p": dw Z19..Z10..Z11..Z09..cycle; dwv (hP,.7aH)--(hP,-.3aH);
ef c="q": dw Z19..Z10..Z11..Z09..cycle; dwv (fW,.7aH)--(fW,-.3aH);
ef c="r": cdw (sbp(.35,.72)Z19..Z10..Z14..Z09..cycle) shifted(0,-fP); dwv Z02--Z18;
ef c="s": cdw sbp(.05,.45)pathO; cdw sbp(.55,.95)pathO; dw (fW,.3aH){up}..{up}(hP,.7aH);
ef c="t": dwv Z07--Z06; dwh (0,.66aH)--(aW,.66aH);
ef c="u": cdw Z18..(hP,.55aH){down}..Z19..(fW,.55aH){up}..Z15; dwv Z15--Z05;
ef c="v": dwv Z18--Z07--Z15;
ef c="w": dwv Z18--(.25aW,0)--Z06--(.75aW,0)--Z15;
ef c="x": dwvs(1.4) Z18--Z05; dwvs(1.4) Z15--Z02;
ef c="y": dwvs(1.4) (Z18--Z20) shifted (0,-.3aH); dwvs(1.4) (Z15--Z02) shifted (0,-.3aH);
ef c="z": dwh Z12--Z16; dwvs(1.4) (1.4hP,fP)--(aW-1.4hP,aH-fP); dwh Z01--Z04;
ef c="0": dw Z09...Z14...Z10...Z19...cycle;
ef c="1": dwv Z07--Z06--(hW-hP,fH)--(hW-hP,aH-2.5hP);
ef c="2": cdw sbp(0,.71)(hP,1.3hP)--(fW,.55aH)..Z14..(hP,.5aH)..(hW,.27aH); dwh Z04--Z01;
ef c="3": cdw sbp(0,.77)pathOh; cdw sbp(.23,.95)pathOh shifted (0,.5aH-hP); dwh (.3aW,hH)--Z20;
ef c="4": dwh (0,.3aH)--(aW,.3aH); dwv (.7aW,0)--(.7aW,aH)--(1.2hP,.3aH+hP);
ef c="5": dwh Z12--Z16; dwv Z13--(hP,.49aH);
cdw (.5hP,.15aH)..(.65aW,1.3hP)..(fW,.3aH)..(hW,.6aH)..(.6hP,.53aH);
ef c="6": dw Z19..(fW,.5fW)..(hW,fW)..(hP,.5fW)..cycle; cdw (hP,.4aH)--Z06;
ef c="7": dwh (0,.fH)--Z16; dwvs(1.2) (aW-1.2hP,aH-fP)--(.4aW,0);
ef c="8": dw pathOh; dw (hP,.75aH)...Z14...(fW,.75aH)...Z20...cycle;
ef c="9": dw (Z19..(fW,.5fW)..(hW,fW)..(hP,.5fW)..cycle) shifted (0,.32aH); cdw (fW,.6aH)--Z07;
ef c=" ":
ef c=".": ppcs 1.4fP; dw Z19;
ef c=",": dw (hW+.5fP,hP)..(hW+.3fP,-fP)..(hW-.5fP,hP-2fP); ppcs 1.4fP; dw Z19;
ef c="'": dw (hW+.5fP,fH)..(hW+.3fP,fH-fP)..(hW-.5fP,fH-2fP); ppcs 1.4fP; dw Z14;
ef c="`": dw (hW-.5fP,fH-2fP)..(hW-.3fP,fH-fP)..(hW+.5fP,fH); ppcs 1.4fP; dw (hW,fH-2fP);
ef c=":": ppcs 1.4fP; dw (hW,.2aH); dw (hW,.8aH);
ef c=";": dw (hW+hP,.2aH)..(hW-hP,.2aH-2fP); ppcs 1.4fP; dw (hW,.2aH); dw (hW,.8aH);
ef c="(": dw Z19...Z09...Z14;
ef c=")": dw Z19...Z10...Z14;
ef c="[": dwv Z07--Z06; dwh Z14--(fW,fH); dwh Z19--Z21;
ef c="]": dwv Z07--Z06; dwh Z14--Z13; dwh Z03--Z19;
ef c="<": cdw Z01--Z17--Z12;
ef c=">": cdw Z16--Z08--Z04;
ef c="-": dwh Z09--Z10;
ef c="_": dwh Z03--Z21;
ef c="=": dwh (hP,.3aH)--(fW,.3aH); dwh (hP,.6aH)--(fW,.6aH);
ef c="/": dw (fW,fH)..Z01;
ef c="+": dwv Z19--Z14; dwh Z09--Z10;
ef c="*": dw Z19--Z14; dw Z09--Z10; dw (fW,fH)--Z01; dw Z13--Z21;
else:
fi
enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
def blank_str:= " " enddef;
vardef fixed_r(expr n)(expr s)= (substring(0,n-length(s)) of blank_str)&s enddef;
vardef fixed_l(expr n)(expr s)= s&(substring(0,n-length(s)) of blank_str) enddef;
vardef fdr(expr n)(expr s)=fixed_r(n)(decimal(s)) enddef;
vardef fdl(expr n)(expr s)=fixed_l(n)(decimal(s)) enddef;
def warning(expr s)= message "% "&decimal(char_num)&fdr(3)(incr warning_cnt)&")"&s; enddef;
def bond_check(expr a)(text s)=
nF:=0; for list=s: if list=bond_cnt: nF:=1; fi endfor
if nF=0:
warning("A"&decimal(a)&" ( "&fixed_l(8)(strD[numS[a]])&") has"&fdr(2)(bond_cnt)&" bonds");
fi
enddef;
vardef stripP(expr a)=if length(a)=4: substring (1,3) of a else: a fi enddef;
%==================================================================================================
def STa(expr a,b,c)=
tbl_atom_str[incr tbl_cnt]:=a; tbl_atom[tbl_cnt]:=0;
tbl_atom_wt[tbl_cnt]:=b; tbl_atom_mi[tbl_cnt]:=c;
enddef;
%----------------------------------------------------------------------------------
def STb(expr a)(text s)=
tbl_atom_str[incr tbl_cnt]:=a; tbl_atom[tbl_cnt]:=0;
for list=s: tbl_atom[tbl_cnt]:=tbl_atom[tbl_cnt]+1;
for j=1 upto tbl_cnt:
if list=tbl_atom_str[j]: tbl_subst[tbl_cnt][tbl_atom[tbl_cnt]]:=j; fi
endfor
endfor
enddef;
%==================================================================================================
tbl_cnt:=0;
STa("C" ,12.0107, 12.0000000); STa("H" , 1.00794, 1.00782503223);
STa("{Al}",26.9815, 26.98153853); STa("{As}",74.9216, 74.92159457);
STa("B" ,10.811, 11.00930536); STa("{Br}",79.904, 78.9183376);
STa("{Ca}",40.078, 39.962590863); STa("{Cl}",35.453, 34.968852);
STa("{Co}",58.933194, 58.93319429); STa("{Cr}",51.9961, 51.94050623);
STa("{Cu}",63.546, 62.92959772); STa("D" ,2.012, 2.01410177812);
STa("F" ,18.9984, 18.99840316273); STa("{Fe}",55.845, 55.93493633);
STa("{Hg}",200.59, 201.97064340); STa("I" ,126.90447,126.9044719);
STa("K" ,39.0983, 38.9637064864); STa("{Li}",6.941, 7.0160034366);
STa("{Mg}",24.305, 23.985041697); STa("{Mn}",54.938044, 54.93804391);
STa("N" ,14.0067, 14.00307400443); STa("{Na}",22.98977, 22.9897692820);
STa("{Ni}",58.693, 57.93534241); STa("O" ,15.9994, 15.99491461957);
STa("P" ,30.973762, 30.97376199842); STa("S" ,32.065, 31.9720711744);
STa("{Se}",78.971, 79.9165218); STa("{Si}",28.0855, 27.97692653465);
STa("{Sn}",118.71, 119.90220163); STa("{Ti}",47.867, 47.94794198);
STa("{Zn}",65.409, 63.92914201);
%--------------------------------------------------------------------------------------------------
STb("{H_2_}")("H","H"); STb("OH")("O","H"); STb("O{Na}")("O","{Na}"); STb("CN")("C","N");
STb("SH")("S","H"); STb("CHO")("C","H","O"); STb("N{O_2_}")("N","O","O");
STb("N{H_2_}")("N","H","H"); STb("S{O_3_}")("S","O","O","O"); STb("COOH")("C","O","O","H");
STb("C{H_3_}")("C","H","H","H"); STb("C{F_3_}")("C","F","F","F");
%==================================================================================================
def proc_calc_out=
begingroup
save warning_cnt,MWp,knownA,bondC,tmp_wtp,bond_cnt,cnt_hide_H;
numeric sumA[],bondC[],hideH[];
string sumA,s_tag,s_var;
inf_NO:=inf_EN:=inf_JN:=inf_FM:=inf_CAS:=inf_USE:=inf_EXA:=inf_EXB:=inf_MW:="";
cal_MW:=cal_MW_str:=cal_FM:=""; cnt_hide_H:=warning_cnt:=MW_num:=MI_num:=MWp:=0;
%------------------------------------------------------------------------------------------
for j=1 upto inf_num:
nA:=0; for i=0 upto length(info[j]): if pic_c(i,info[j])=":": nA:=i; fi exitif nA>0; endfor
if nA>0:
s_tag:=substring (0,nA) of info[j];
s_var:=substring (nA+1,length(info[j])) of info[j];
if known scantokens("inf_"&s_tag): scantokens("inf_"&s_tag):=s_var; fi
fi
endfor
for i=1 upto tbl_cnt: sumA[i]:=0; endfor
for i=1 upto cntA:
knownA:=bond_cnt:=0;
for j=1 upto cntB:
if (lineB[j]>=dl)and(lineB[j]<=dm): bondC[j]:=2;
elseif lineB[j]=tm: bondC[j]:=3;
elseif (lineB[j]=vf)or(lineB[j]=vb): bondC[j]:=0;
else: bondC[j]:=1;
fi
if (sB[j]=i)or(eB[j]=i): bond_cnt:=bond_cnt+bondC[j]; fi
endfor
Bcnt[i]:=bond_cnt;
if strD[numS[i]]="": strD[numS[i]]:="C"; fi
if (strD[numS[i]]="C")and(bond_cnt<4):
hideH[i]:=4-bond_cnt; cnt_hide_H:=cnt_hide_H+hideH[i]; else: hideH[i]:=0;
fi
if strD[numS[i]]="C": bond_check(i)(1,2,3,4);
elseif strD[numS[i]]="N": bond_check(i)(3,5);
elseif strD[numS[i]]="H": bond_check(i)(1);
elseif strD[numS[i]]="O": bond_check(i)(2);
elseif strD[numS[i]]="S": bond_check(i)(2,4,6);
elseif strD[numS[i]]="P": bond_check(i)(5);
elseif strD[numS[i]]="OH": bond_check(i)(1);
elseif strD[numS[i]]="COOH": bond_check(i)(1);
elseif strD[numS[i]]="CN": bond_check(i)(1);
elseif strD[numS[i]]="N{H_2_}": bond_check(i)(1);
elseif strD[numS[i]]="F": bond_check(i)(1);
elseif strD[numS[i]]="{Cl}": bond_check(i)(1);
elseif strD[numS[i]]="{Br}": bond_check(i)(1);
fi
for j=1 upto tbl_cnt:
if strD[numS[i]]=tbl_atom_str[j]:
if tbl_atom[j]=0: sumA[j]:=sumA[j]+1;
else: for k=1 upto tbl_atom[j]: sumA[tbl_subst[j][k]]:=sumA[tbl_subst[j][k]]+1; endfor fi
knownA:=1; fi endfor
if knownA=0: warning(" Unknown Str("&strD[numS[i]]&") is used "&decimal(i)); fi
endfor
sumA[2]:=sumA[2]+cnt_hide_H;
for i=1 upto tbl_cnt:
if sumA[i]>=1:
nA:=tbl_atom_wt[i]/100*sumA[i]; MWp:=MWp+nA;
if (MWp<40)and(nA<40): MW_num:= MW_num+tbl_atom_wt[i]*sumA[i];
MI_num:= MI_num+tbl_atom_mi[i]*sumA[i]; fi
cal_FM:=cal_FM&stripP(tbl_atom_str[i]) if sumA[i]>=2: &decimal(sumA[i]) fi;
fi
endfor
cal_MI:=substring (0,10) of decimal(MI_num);
cal_MW:=substring (0,8) of decimal(MW_num);
if sw_auxout=1: proc_auxfile_out; fi
if sw_report=1: proc_report_out; fi
if sw_MOLout=1: proc_MOLfile_out; fi
endgroup
enddef;
%==================================================================================================
def auxtag_out=
for i=1 upto aux_max: exitif tag[i]=""; if i=1: printf tag[1] else: &aux_delimiter&tag[i] fi
endfor
enddef;
%==================================================================================================
def proc_auxfile_out=
message "["&decimal(char_num)&"]:"&inf_EN;
for i=1 upto aux_max: exitif tag[i]="";
if i=1: printf "" else: &aux_delimiter fi if sw_auxfix=0: &tag[i]&":" fi &
if string scantokens(var[i]): scantokens(var[i])
elseif numeric scantokens(var[i]): decimal(scantokens(var[i])) fi
endfor
if sw_auxfix=0: for i=1 upto inf_num: &aux_delimiter&info[i] endfor; fi
enddef;
%==================================================================================================
vardef round_auto(expr n)=
if (n<4) and(n>-4): round(n*1000)/1000 elseif (n<40) and(n>-40): round(n*100)/100
elseif (n<400)and(n>-400): round(n*10)/10 else: round(n) fi
enddef;
%--------------------------------------------------------------------------------------------------
def proc_report_out=
message "------------------------------------------------------------------";
message " Molecular name = "& inf_EN;
message " Warnings = "&fdr(3)(warning_cnt)&" / Expanded command = "&decimal(cntD[0]);
message " Width * Height = " & fdr(10)(mol_wd)&" * "&fdr(10)(mol_ht);
message " Shift width * height = "& fdr(10)(minX)&" * "&fdr(10)(minY);
message " Bond length = "&fdr(3)(bond_len)&" Atom size = "&fdr(3)(atom_wd);
message " Atom count="&fdr(3)(cntA)&" Bond count="&fdr(3)(cntB)&
" Ring count="&fdr(3)(cntB-cntA+1)&" Hide H count="&fdr(3)(cnt_hide_H);
message "------------------------------------------------------------------";
message "< NO. >( x axis , y axis )< atom >< bond >< hide_H >";
for i=1 upto cntA:
message " A"&fdl(4)(i)&" ("&fdr(10)(round_auto(xpart(posA[i])/bond_len))&" , "&
fdr(10)(round_auto(ypart(posA[i])/bond_len))&" ) "&fixed_l(8)(strD[numS[i]])&
" "&fdr(3)(Bcnt[i]) if hideH[i]>0: &fdr(8)(hideH[i]) fi;
endfor
message "------------------------------------------------------------------";
message "< NO. >< bond (sdt)><angle + ( +- )><length ( pt )>";
for i=1 upto cntB:
nC:=lenB[i]; if nC=_size_a: nC:=ratio_atom_bond; elseif nC<0: nC:=-nC; fi
if lineB[i]<>0:
nB:=angB[i]; if nB>180: nB:=nB-360; fi
message " B"&fdl(4)(i)&fdr(3)(sB[i])&" -> "&fdr(3)(eB[i])&
" ("&fdr(3)(bondC[i]-si+1)&")"&fdr(9)(round_auto(angB[i]))&
" ("&fdr(6)(round_auto(nB))&")"&fdr(8)(nC)&" ("&fdr(8)(round_auto(nC*bond_len))&")";
fi
endfor
message "------------------------------------------------------------------";
message "<atom>( atom wt )[ mi wt ] < cnt > < sum wt >[ sum mi wt ]";
if MWp<=40: cal_MW_str:=cal_MW; cal_MI_str:=cal_MI;
else: cal_MW_str:=fdr(10)(MWp)&" * 100"; cal_MI_str:=fdr(10)(MIp)&" * 100";
fi
for i=1 upto tbl_cnt:
if sumA[i]>=1:
nA:=tbl_atom_wt[i]/100*sumA[i]; nB:=tbl_atom_mi[i]/100*sumA[i];
message " "&
fixed_l(5)(stripP(tbl_atom_str[i]))&
"("&fdr(9)(tbl_atom_wt[i])&")"&"["&fdr(9)(tbl_atom_mi[i])&"]"&
" * "&fdr(4)(sumA[i])&" = "
if nA<40: &fdr(12)(tbl_atom_wt[i]*sumA[i])&"["&fdr(12)(tbl_atom_mi[i]*sumA[i])&"]";
else: &fdr(12)(nA)&" * 100"&"["&fdr(12)(nA)&" * 100"&"]";
fi
fi
endfor
message " Molecular Weight [Mono Isotopic] = "&
fixed_r(12)(cal_MW_str)&"["&fixed_r(12)(cal_MI_str)&"]";
message "------------------------------------------------------------------";
message " Weight Calc: " &cal_MW_str &" / Input: "
if inf_MW<>"": &inf_MW &" / weight gap= " &decimal(MW_num-scantokens(inf_MW)) fi;
message " Fomula Calc: "&cal_FM&" / Input: "
if inf_FM<>"": &inf_FM&" / "& if inf_FM=cal_FM: "MACTCH" else: "NOT MACTCH" fi fi;
message "==================================================================";
enddef;
%==================================================================================================
def proc_MOLfile_out=
mp_log_name:=jobname&"-"&fit_zero(char_num)&decimal(char_num)&"-"&inf_EN&".mol";
printf ""; printf " -MCFtoMOL- "&fixed_l(20)(info[1]); printf "";
printf fdr(3)(cntA)&fdr(3)(cntB)&" 0 0 0 0 0 0 0 0999 V2000";
for i=1 upto cntA: printf fdr(10)(xpart(posA[i])/bond_len)& fdr(10)(ypart(posA[i])/bond_len)&
fdr(10)(0)&" "&fixed_l(2)(stripP(strD[numS[i]]))&" 0 0 0 0"; endfor
for i=1 upto cntB: if lineB[i]<>0:
if (lineB[i]=dl)or(lineB[i]=dr)or(lineB[i]=dm): nA:=2;
elseif lineB[i]=tm: nA:=3;
elseif (lineB[i]=wf)or(lineB[i]=zb)or(lineB[i]=bd): nB:=1;
elseif (lineB[i]=zf)or(lineB[i]=wb)or(lineB[i]=dt): nB:=6;
elseif lineB[i]=wv: nB:=4; else: nA:=1; nB:=0; fi
printf fdr(3)(sB[i])&fdr(3)(eB[i])&fdr(3)(nA)&fdr(3)(nB)&" 0 0"; fi endfor
printf "M END";
enddef;
%-------------------------------------------------------------------------------------------------
vardef fit_zero(expr n)=if n<=9: "00" elseif n<=99: "0" fi enddef;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
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