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#include "GBase.h"
#include "GArgs.h"
#include "GStr.h"
#include "GBitVec.h"
#include "GList.hh"
#include "GHash.hh"
#define USAGE "Usage:\n\
gtest [--bit-test|-g|--genomic-fasta <genomic_seqs_fasta>] [-c|COV=<cov%>] \n\
[-s|--seq <seq_info.fsize>] [-o|--out <outfile.gff>] [--disable-flag] [-t|--test <string>]\n\
[-p|PID=<pid%>] file1 [file2 file3 ..]\n\
"
enum {
OPT_HELP=1,
OPT_GENOMIC,
OPT_COV,
OPT_SEQ,
OPT_OUTFILE,
OPT_DISABLE_FLAG,
OPT_TEST,
OPT_PID,
OPT_BITVEC,
OPT_NUM
};
GArgsDef opts[] = {
{"help", 'h', 0, OPT_HELP},
{"genomic-fasta", 'g', 1, OPT_GENOMIC},
{"COV", 'c', 1, OPT_COV},
{"seq", 's', 1, OPT_SEQ},
{"out", 'o', 1, OPT_OUTFILE},
{"disable-flag", 0, 0, OPT_DISABLE_FLAG},
{"test", 't', 1, OPT_TEST},
{"PID", 'p', 1, OPT_PID},
{"bit-test", 'B', 0, OPT_BITVEC},
{"bignum", 'n', 1, OPT_NUM},
{0,0,0,0}
};
void bitError(int idx) {
GError("Error bit checking (index %d)!\n", idx);
}
struct Gint {
int v;
Gint(int vv=0):v(vv) {}
int val() { return v; }
~Gint() {
GMessage("Gint with val %d getting destroyed\n", v);
}
};
int cmpGint(pointer p1, pointer p2) {
int v1=((Gint*)p1)->v;
int v2=((Gint*)p2)->v;
if (v1<v2) return -1;
return (v1>v2)? 1 : 0;
}
void testGPVec() {
GPVec<Gint> vecs[3];
vecs[1].Add(new Gint(2));
vecs[2].Add(new Gint(3));
GMessage("Added to vecs[1]:%d\n", vecs[1][0]->val());
GMessage("Added to vecs[2]:%d\n", vecs[2][0]->val());
}
int main(int argc, char* argv[]) {
//GArgs args(argc, argv, "hg:c:s:t:o:p:help;genomic-fasta=COV=PID=seq=out=disable-flag;test=");
GArgs args(argc, argv, opts);
fprintf(stderr, "Command line was:\n");
args.printCmdLine(stderr);
args.printError(USAGE, true);
//if (args.getOpt('h') || args.getOpt("help"))
GVec<int> transcripts(true);
transcripts.cAdd(0);
fprintf(stderr,"after add transcript counts=%d\n",transcripts.Count());
exit(0);
if (args.getOpt(OPT_HELP))
{
GMessage("%s\n", USAGE);
exit(1);
}
if (args.getOpt(OPT_NUM)) {
GStr snum(args.getOpt(OPT_NUM));
int num=snum.asInt();
char* numstr=commaprintnum(num);
GMessage("Number %d written with commas: %s\n", num, numstr);
GFREE(numstr);
}
//---
GHash<GVec<int> > ends;
/*
testGPVec();
//exit(0);
//uint pos=3;
//GStr spos((int)pos);
//GVec<int> *ev=ends[spos.chars()];
GPVec<Gint> v;
int r(5);
int rr=v.Add(new Gint(3));
//if (rr<0) {
// GMessage("Error adding 0! (code %d)\n",rr);
// }
v.Add(new Gint(r));
v.Add(new Gint(2));
v.Add(new Gint(1));
v.Add(new Gint(4));
rr=v.Add(new Gint(0));
v[rr]->v=-1;
v.Sort(cmpGint);
GMessage("collection has %d elements:\n",v.Count());
for (int i=0;i<v.Count();i++) {
GMessage("v[%d]=%d;\n",i,v[i]->v);
}
exit(0);
*/
//---
int numopts=args.startOpt();
if (numopts)
GMessage("#### Recognized %d option arguments:\n", numopts);
int optcode=0;
while ((optcode=args.nextCode())) {
char* r=args.getOpt(optcode);
GMessage("%14s\t= %s\n", args.getOptName(optcode), (r[0]==0)?"True":r);
}
int numargs=args.startNonOpt();
if (numargs>0) {
GMessage("\n#### Found %d non-option arguments given:\n", numargs);
char* a=NULL;
while ((a=args.nextNonOpt())) {
GMessage("%s\n",a);
}
}
GStr s=args.getOpt('t');
if (!s.is_empty()) {
GStr token;
GMessage("Tokens in \"%s\" :\n",s.chars());
s.startTokenize(";,: \t");
int c=1;
while (s.nextToken(token)) {
GMessage("token %2d : \"%s\"\n",c,token.chars());
c++;
}
}
if (args.getOpt(OPT_BITVEC)) {
uint numbits=4156888234;
GBitVec bits(numbits);
GMessage(">>> -- BitVec(%u) created (size=%u, mem=%lu) -- \n", numbits, bits.size(),
bits.getMemorySize());
bits[405523342]=true;
GMessage(" memory size: %lu , size()=%u, count()=%d \n", bits.getMemorySize(), bits.size(), bits.count());
/*
//GMessage(">>> -- Start BitVec Test -- \n");
if (bits[1092]) bitError(1092);
bits.resize(2049);
if (bits[2048]) bitError(2048);
bits[2048]=true;
if (!bits[2048]) bitError(2048);
bits.resize(4097);
if (!bits[2048]) bitError(2048);
if (bits[4096]) bitError(4096);
bits[4096]=true;
if (!bits[4096]) bitError(4096);
GBitVec bits2(64);
Gswap(bits, bits2);
if (!bits2[2048]) bitError(2048);
if (!bits2[4096]) bitError(4096);
*/
//GMessage("<<< -- End BitVec Test (size: %d, count: %d, bits2 size=%d, count=%d) --\n",
/// bits.size(), bits.count(), bits2.size(), bits2.count());
}
}
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