1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
|
#!/bin/env perl
##!/usr/local/bin/perl -w
#
#
$scrName=$0;$scrName=~s/^.*\/|\.pl//g;
$scrGoal="compile PHD FORTRAN tools programs (convert_seq, filter_hssp)";
#$scrGoal="compile PHD FORTRAN tools programs (convert_seq, filter_hssp, maxhom ?)";
#
#
$[ =1 ;
$dirMake= "mat/";
# for PHD
$fileMake{"convert"}="make_convert_seq.ARCH";
$fileMake{"filter"}= "make_filter_hssp.ARCH";
$fileMake{"phd"}= "makePhd.ARCH";
# for TOPITS
$fileMake{"metr2st"}="make_metr2st_make.ARCH";
# for MaxHom
$fileMake{"maxhom"}= "make_maxhom.ARCH";
$fileMake{"profile"}="make_profile_make.ARCH";
$exe{"convert"}= "convert_seq.". "ARCH";
$exe{"filter"}= "filter_hssp.". "ARCH";
$exe{"phd"}= "phd.". "ARCH";
$exe{"metr2st"}= "metr2st_make.". "ARCH";
$exe{"maxhom"}= "maxhom.". "ARCH";
$exe{"profile"}= "profile_make.". "ARCH";
$LnotMaxhome= 1;
#$LnotMaxhome= 0;
@all=("convert","filter","metr2st","maxhom","profile","phd");
# ------------------------------
if ($#ARGV<1){ # help
print "goal: $scrGoal\n";
print "use: '$scrName <auto|filter|convert|metr2st|maxhom|profile>'\n";
print "opt: (pass the following arguments like '$scrName arg=val')\n";
# 'keyword' 'value' 'description'
printf " %-12s=%-10s %-22s %-s\n","." x 10, "." x 10, "." x 15, "." x 20;
printf " %-12s=%-10s %-22s %-s\n","keyword", "value", "default", "explanation";
printf " %-12s=%-10s %-22s %-s\n","." x 10, "." x 10, "." x 15, "." x 20;
printf " %-12s=%-10s %-22s %-s\n","ARCH", "ALPHA", "",
"system arch: SGI64|SGI32|SGI5|ALPHA|SUNMP|LINUX";
printf " %-12s=%-10s %-22s %-s\n","dir", "mat",$dirMake, "directory with make file";
foreach $kwd (@all){
next if ($LnotMaxhom && $kwd eq "maxhom");
printf " %-12s=%-10s %-22s %-s\n","exe_".$kwd,"x", $exe{$kwd}, "name of executable"; }
foreach $kwd (@all){
next if ($LnotMaxhom && $kwd eq "maxhom");
printf " %-12s=%-10s %-22s %-s\n","make_".$kwd,"x", $fileMake{$kwd},"make file";}
foreach $kwd (@all){
next if ($LnotMaxhom && $kwd eq "maxhom");
printf " %-12s %-10s %-22s %-s\n",$kwd, "no value", "1","compiles $kwd";}
exit;
}
foreach $kwd (@all) {
$do{$kwd}=0;}
$Lopted=0;
# ------------------------------
# read command line
foreach $arg (@ARGV){
next if ($arg eq $ARGV[1] && $arg =~ /^(auto|do)$/);
if ($arg=~/^ARCH=(.*)$/i) { $ARCH=$1;}
elsif ($arg=~/^make_(.*)=(.*)$/) { $fileMake{$1}=$2;}
elsif ($arg=~/^exe_(.*)=(.*)$/) { $exe{$1}=$2;}
elsif ($arg=~/^conv(ert)?$/) { $do{"convert"}=1; $Lopted=1;}
elsif ($arg=~/^fil(ter)?$/) { $do{"filter"}= 1; $Lopted=1;}
elsif ($arg=~/^metr(2st)?$/) { $do{"metr2st"}=1; $Lopted=1;}
elsif ($arg=~/^max(hom)?$/) { $do{"maxhom"}= 1; $Lopted=1;}
elsif ($arg=~/^prof(ile)?$/) { $do{"profile"}=1; $Lopted=1;}
elsif ($arg=~/^phd?$/) { $do{"phd"}=1; $Lopted=1;}
elsif ($arg=~/^dir=(.*)$/) { $dirMake=$1;}
# elsif ($arg=~/^=(.*)$/){ $=$1;}
else { print "*** ERROR $scrName: wrong command line arg '$arg'\n";
die;}}
$ARCH= $ARCH || $ENV{'ARCH'};
$dirMake.="/" if ($dirMake !~/\// && length($dirMake)>=1);
if (! defined $ARCH) {
$ansr=
&get_in_keyboardLoc("ARCH","",$scrName);
$ARCH=$ansr; }
if ($ARCH !~ /ALPHA|SGI(64|32|5)|SUNMP|SUN4SOL|LINUX/){
print "--- $scrName: ARCH must be either of the following :\n";
print "--- "." " x length($scrName)." ALPHA|SGI64|SGI32|SGI5|SUNMP|SUN4SOL\n";
$ansr=
&get_in_keyboardLoc("ARCH","",$scrName);
$ARCH=$ansr; }
if ($ARCH !~ /ALPHA|SGI(64|32|5)|SUNMP|SUN4SOL|LINUX/){
print "*** ERROR $scrName: ARCH really must be either of the following :\n";
print "*** "." " x length($scrName)." ALPHA|SGI64|SGI32|SGI5|SUNMP|SUN4SOL\n";
die; }
# default: do all 3 compilations
if (! $Lopted){
foreach $kwd (@all){
next if ($LnotMaxhom && $kwd eq "maxhom");
$do{$kwd}=1;}}
foreach $kwd (@all) {
next if (! $do{$kwd});
$fileMake{$kwd}=~s/ARCH/$ARCH/ if ($fileMake{$kwd} =~ /ARCH/);
$fileMake{$kwd}=$dirMake.$fileMake{$kwd} if ($fileMake{$kwd} !~ /$dirMake/);
$fileMake=$fileMake{$kwd};
undef $exeOut;
if (defined $exe{$kwd}) {
$exeOut= $exe{$kwd};
$exeOut=~s/ARCH/$ARCH/ if ($exeOut=~/ARCH/);}
$exeDef= "convert_seq.".$ARCH if ($kwd eq "convert");
$exeDef= "filter_hssp.".$ARCH if ($kwd eq "filter");
$exeDef= "maxhom." .$ARCH if ($kwd eq "maxhom");
$exeDef= "phd." .$ARCH if ($kwd eq "phd");
# local copy of make file
$fileMakeTmp="make_".$kwd."_tmp_".$$.".".$ARCH;
print "--- $scrName: system '\\cp $fileMake $fileMakeTmp '\n";
system("\\cp $fileMake $fileMakeTmp");
# compile
print "--- $scrName: system 'make -f $fileMakeTmp'\n";
system("make -f $fileMakeTmp");
if (-e $exeDef && defined $exeOut && ($exeDef ne $exeOut)) {
print "--- $scrName: system '\\mv $exeDef $exeOut'\n";
system("\\mv $exeDef $exeOut");
$exeDef=$exeOut; }
print "--- $scrName: expected executable: $exeDef\n" if (-e $exeDef);
print "*** ERROR $scrName: never made '$exeDef'\n" if (! -e $exeDef);
unlink($fileMakeTmp);
}
exit;
#===============================================================================
sub get_in_keyboardLoc {
local($des,$def,$pre,$Lmirror)=@_;local($txt);
#--------------------------------------------------------------------------------
# get_in_keyboardLoc gets info from keyboard
# in: $des : keyword to get
# in: $def : default settings
# in: $pre : text string beginning screen output
# default '--- '
# in: $Lmirror: if true, the default is mirrored
# out: $val : value obtained
#--------------------------------------------------------------------------------
$pre= "---" if (! defined $pre);
$Lmirror=0 if (! defined $Lmirror || ! $Lmirror);
$txt=""; # ini
printf "%-s %-s\n", $pre,"-" x (79 - length($pre));
printf "%-s %-15s:%-s\n", $pre,"type value for",$des;
if (defined $def){
printf "%-s %-15s:%-s\n",$pre,"type RETURN to enter value, or to keep default";
printf "%-s %-15s>%-s\n",$pre,"default value",$def;}
else {
printf "%-s %-15s>%-s\n",$pre,"type RETURN to enter value"; }
$txt=$def if ($Lmirror); # mirror it
printf "%-s %-15s>%-s", $pre,"type",$txt;
while(<STDIN>){
$txt.=$_;
last if ($_=~/\n/);} $txt=~s/^\s+|\s+$//g;
$txt=$def if (length($txt) < 1);
printf "%-s %-15s>%-s\n", $pre,"--> you chose",$txt;
return ($txt);
} # end of get_in_keyboardLoc
|
