void LibConfigProgram::createArguments(LibConfig::VersionInfo::Settings& version) const
{
LibConfig::VersionInfo::Settings::SettingsPerModule::OptionMap args;
# if !defined(YUNI_OS_MSVC) && !defined(YUNI_OS_MAC)
bool hasCxxFlags = false;
# endif
if (pOptCxxFlags)
{
const String::List::const_iterator end = pOptModules.end();
for (String::List::const_iterator i = pOptModules.begin(); i != end; ++i)
{
LibConfig::VersionInfo::Settings::SettingsPerModule& modSettings = version.moduleSettings[*i];
modSettings.merge(args, modSettings.cxxFlags);
modSettings.merge(args, modSettings.defines);
modSettings.merge(args, modSettings.includes);
}
if (!args.empty())
{
# if !defined(YUNI_OS_MSVC) && !defined(YUNI_OS_MAC)
hasCxxFlags = true;
# endif
PrintArgs(args);
}
}
if (pOptLibFlags)
{
args.clear();
const String::List::const_iterator end = pOptModules.end();
for (String::List::const_iterator i = pOptModules.begin(); i != end; ++i)
{
LibConfig::VersionInfo::Settings::SettingsPerModule& modSettings = version.moduleSettings[*i];
modSettings.merge(args, modSettings.frameworks);
modSettings.merge(args, modSettings.libs);
modSettings.merge(args, modSettings.libIncludes);
}
if (!args.empty())
{
# if !defined(YUNI_OS_MSVC) && !defined(YUNI_OS_MAC)
if (hasCxxFlags)
std::cout << ' ';
std::cout << "-Wl,--start-group ";
# endif
PrintArgs(args);
# if !defined(YUNI_OS_MSVC) && !defined(YUNI_OS_MAC)
std::cout << " -Wl,--end-group";
# endif
}
}
std::cout << "\n";
}
void CanvasBase::Print(const char* format, ... ) const
{
va_list oArgs;
va_start(oArgs, format);
PrintArgs(m_oPrintParam.x, m_oPrintParam.y, m_oPrintParam.sFontPath, m_oPrintParam.size, m_oPrintParam.eAlign, m_oPrintParam.oColor.r, m_oPrintParam.oColor.g, m_oPrintParam.oColor.b, format, oArgs);
switch (m_oPrintParam.eAlign)
{
case LeftTop:
case CenterTop:
case RightTop:
case LeftCenter:
case Center:
case RightCenter:
m_oPrintParam.y += m_oPrintParam.size;
break;
case LeftBottom:
case CenterBottom:
case RightBottom:
m_oPrintParam.y -= m_oPrintParam.size;
break;
}
va_end(oArgs);
}
int main(int argc, char *argv[]){
Read *Read = CreateRead(65536+GUARD, 65535+GUARD);
int32_t seqSize = 0, x, n;
uint64_t cutted = 0, totalReads = 0;
if(argc < 2 || ArgBin(0, argv, argc, "-h") || ArgBin(0, argv, argc, "?")){
PrintArgs(argv[0]);
return EXIT_SUCCESS;
}
int k = ArgNum(5, argv, argc, "-k", 0, 9999999);
int min_QS_window = ArgNum(25, argv, argc, "-w", 0, 9999999);
int min_QS = ArgNum(33, argv, argc, "-m", 0, 9999999);
fprintf(stderr, "Minimum QS: %d\n", min_QS);
uint32_t position = 0;
while(GetRead(stdin, Read)){
seqSize = strlen((char *) Read->bases) - 1;
for(x = seqSize ; x >= 0 ; x--){
if(x >= k){
int tmp_QS = 0;
for(n = 0 ; n < k ; ++n){
tmp_QS += ((int) Read->scores[x - 1 - n]) - min_QS;
}
if(((double) tmp_QS / k) < (double) min_QS_window){
++cutted;
position = x;
break;
}
}
}
++totalReads;
if(x > seqSize - k) continue;
// PRINT READ
fprintf(stdout, "@");
for(n = 0 ; n < strlen((char *) Read->header1) ; ++n)
fprintf(stdout, "%c", Read->header1[n]);
for(n = position ; n < seqSize ; ++n)
fprintf(stdout, "%c", Read->bases[n]);
fprintf(stdout, "\n+\n");
for(n = position ; n < seqSize ; ++n)
fprintf(stdout, "%c", Read->scores[n]);
fprintf(stdout, "\n");
}
fprintf(stderr, "Total reads : %"PRIu64"\n", totalReads);
fprintf(stderr, "Trimmed reads : %"PRIu64"\n", cutted);
FreeRead(Read);
return EXIT_SUCCESS;
}
// Print the action name and the target.
void MHElemAction::PrintMe(FILE *fd, int nTabs) const
{
PrintTabs(fd, nTabs);
fprintf(fd, "%s (", m_ActionName);
m_Target.PrintMe(fd, nTabs+1);
PrintArgs(fd, nTabs+1); // Any other arguments must be handled by the subclass.
fprintf(fd, ")\n");
}
void CanvasBase::Print(sint32 x, sint32 y, const char* sFontPath, uint16 size, ETextAlign eAlign, const Color& oColor, const char* format, ... ) const
{
va_list oArgs;
va_start(oArgs, format);
PrintArgs(x, y, sFontPath, size, eAlign, oColor.r, oColor.g, oColor.b, format, oArgs);
va_end(oArgs);
}
void CanvasBase::Print(sint32 x, sint32 y, const char* sFontPath, uint16 size, ETextAlign eAlign, uint8 r, uint8 g, uint8 b, const char* format, ... ) const
{
va_list oArgs;
va_start(oArgs, format);
PrintArgs(x, y, sFontPath, size, eAlign, r, g, b, format, oArgs);
va_end(oArgs);
}
int main(){
char s[200];
char *argv[10];
// Read a string from the user
printf("Enter a string: ");
fgets(s, sizeof s, stdin);
// Extract arguments and print them
ReadArgs(s, argv, 30);
PrintArgs(argv);
}
// Display a string
void Print(char *fmt, ...)
{
va_list args;
if (fmt == NULL)
{
return;
}
va_start(args, fmt);
PrintArgs(fmt, args);
va_end(args);
}
// Display a debug string with arguments
void DebugArgs(char *fmt, va_list args)
{
// Validate arguments
if (fmt == NULL)
{
return;
}
if (g_debug == false)
{
return;
}
PrintArgs(fmt, args);
}
// デバッグ文字列を引数付きで表示する
void DebugArgs(char *fmt, va_list args)
{
// 引数チェック
if (fmt == NULL)
{
return;
}
if (g_debug == false)
{
return;
}
PrintArgs(fmt, args);
}
int main()
{
char s[200];
char* argv[MAX_ARGS];
int argc;
/* Read a string from the user */
printf("Enter a string: ");
fgets(s, sizeof s, stdin);
/* Remove newline character from input */
s[strlen(s)-1] = '\0';
/* Extract arguments and print them */
ReadArgs(s, argv, MAX_ARGS);
PrintArgs(argv);
return 0;
}
int main(int argc, char *argv[]){
Read *Read = CreateRead(65536+GUARD, 65535+GUARD);
int32_t seqSize = 0, x;
uint64_t *QS = (uint64_t *) Calloc(65536, sizeof(uint64_t));
if(ArgBin(0, argv, argc, "-h") || ArgBin(0, argv, argc, "?")){
PrintArgs(argv[0]);
return EXIT_SUCCESS;
}
while(GetRead(stdin, Read)){
seqSize = strlen((char *) Read->bases) - 1;
for(x = 0 ; x < seqSize ; ++x){
int tmp_QS = (int) Read->scores[x];
if(QS[x] < tmp_QS)
QS[x] = tmp_QS;
if(x == 65535){
fprintf(stderr, "Error: read to long. Increase buffer!\n");
exit(1);
}
}
}
int maxs = atoi(argv[argc-1]);
for(x = 0 ; x < maxs ; ++x)
fprintf(stdout, "%2d ", x+1);
fprintf(stdout, "\n");
for(x = 0 ; x < maxs ; ++x)
fprintf(stdout, "--+");
fprintf(stdout, "\n");
for(x = 0 ; x < maxs ; ++x)
fprintf(stdout, "%2d ", (int) QS[x]);
fprintf(stdout, "\n");
Free(QS, 0);
FreeRead(Read);
return EXIT_SUCCESS;
}
void PrintCommand(struct Command* command)
{
/* Check if line is empty */
if (command->num_sub_commands == 0)
{
printf("Empty command.\n");
return;
}
/* Check if line starts with <, >, & */
if (command->sub_commands[0].argv[0] == NULL)
{
printf("Invalid command.\n");
return;
}
int i;
for (i = 0; i < command->num_sub_commands; i++)
{
printf("\nCommand %d:\n", i);
PrintArgs(command->sub_commands[i].argv);
}
if (command->stdin_redirect == NULL)
printf("\nRedirect stdin: NULL\n");
else
printf("\nRedirect stdin: %s\n", command->stdin_redirect);
if (command->stdout_redirect == NULL)
printf("Redirect stdout: NULL\n");
else
printf("Redirect stdout: %s\n", command->stdout_redirect);
if (command->background)
printf("Background: yes\n");
else
printf("Background: no\n");
}
int main(int argc, char *argv[]){
Read *Read = CreateRead(65536+GUARD, 65535+GUARD);
uint32_t seqSize = 0, totalQS = 0, N = 0, x, n;
uint64_t okReads = 0, totalReads = 0;
if(ArgBin(0, argv, argc, "-h") || ArgBin(0, argv, argc, "?")){
PrintArgs(argv[0]);
return EXIT_SUCCESS;
}
int max_n = ArgNum(0, argv, argc, "-n", 0, 9999999);
int k = ArgNum(5, argv, argc, "-k", 0, 9999999);
int min_QS_window = ArgNum(25, argv, argc, "-w", 0, 9999999);
int min_avg_qs = ArgNum(25, argv, argc, "-a", 0, 9999999);
int min_read_size = ArgNum(35, argv, argc, "-m", 0, 9999999);
// LOAD PARAMETERS
while(GetRead(stdin, Read)){
seqSize = strlen((char *) Read->bases) - 1;
totalQS = 0;
N = 0;
for(x = 0 ; x < seqSize ; ++x){
if(Read->bases[x] == 'N'){
++N;
}
totalQS += ((int) Read->scores[x]) - 33; // PHRED +33
if(x < seqSize - k){
int tmp_QS = 0;
for(n = 0 ; n < k ; ++n)
tmp_QS += ((int) Read->scores[x + n]) - 33;
if(tmp_QS / k < min_QS_window)
break;
}
}
++totalReads;
// EVALUATE TO DISCARD:
if(N > max_n) continue;
if((totalQS / seqSize) < min_avg_qs) continue;
if(x < min_read_size) continue;
// PRINT READ
for(n = 0 ; n < strlen((char *) Read->header1) ; ++n)
fprintf(stdout, "%c", Read->header1[n]);
for(n = 0 ; n < x ; ++n)
fprintf(stdout, "%c", Read->bases[n]);
fprintf(stdout, "\n+\n");
for(n = 0 ; n < x ; ++n)
fprintf(stdout, "%c", Read->scores[n]);
fprintf(stdout, "\n");
++okReads;
}
fprintf(stderr, "Total reads : %"PRIu64"\n", totalReads);
fprintf(stderr, "Filtered reads : %"PRIu64"\n", totalReads-okReads);
FreeRead(Read);
return EXIT_SUCCESS;
}
int main (void)
{
double dummy = 0;
PrintArgs (dummy, 1.0, 2.0, 3.0, -1.0);
return 0;
}
int main (void)
{
A dummy;
PrintArgs (dummy, dummy); // ERROR - cannot pass non-POD
return 0;
}
