3 * This source code is part of
7 * GROningen MAchine for Chemical Simulations
10 * Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
11 * Copyright (c) 1991-2000, University of Groningen, The Netherlands.
12 * Copyright (c) 2001-2004, The GROMACS development team,
13 * check out http://www.gromacs.org for more information.
15 * This program is free software; you can redistribute it and/or
16 * modify it under the terms of the GNU General Public License
17 * as published by the Free Software Foundation; either version 2
18 * of the License, or (at your option) any later version.
20 * If you want to redistribute modifications, please consider that
21 * scientific software is very special. Version control is crucial -
22 * bugs must be traceable. We will be happy to consider code for
23 * inclusion in the official distribution, but derived work must not
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27 * To help us fund GROMACS development, we humbly ask that you cite
28 * the papers on the package - you can find them in the top README file.
30 * For more info, check our website at http://www.gromacs.org
33 * GROningen Mixture of Alchemy and Childrens' Stories
35 /* This file is completely threadsafe - keep it that way! */
48 #include <sys/types.h>
51 #ifdef HAVE_SYS_TIME_H
63 #include "gmx_fatal.h"
68 int continuing(char *s)
69 /* strip trailing spaces and if s ends with a CONTINUE remove that too.
70 * returns TRUE if s ends with a CONTINUE, FALSE otherwise.
77 if ((sl > 0) && (s[sl-1] == CONTINUE)) {
87 char *fgets2(char *line, int n, FILE *stream)
88 /* This routine reads a string from stream of max length n
89 * and zero terminated, without newlines
90 * line should be long enough (>= n)
94 if (fgets(line,n,stream) == NULL) {
97 if ((c=strchr(line,'\n')) != NULL) {
100 /* A line not ending in a newline can only occur at the end of a file,
101 * or because of n being too small.
102 * Since both cases occur very infrequently, we can check for EOF.
104 if (!gmx_eof(stream)) {
105 gmx_fatal(FARGS,"An input file contains a line longer than %d characters, while the buffer passed to fgets2 has size %d. The line starts with: '%20.20s'",n,n,line);
108 if ((c=strchr(line,'\r')) != NULL) {
115 void strip_comment (char *line)
122 /* search for a comment mark and replace it by a zero */
123 if ((c = strchr(line,COMMENTSIGN)) != NULL)
127 void upstring (char *str)
131 for (i=0; (i < (int)strlen(str)); i++)
132 str[i] = toupper(str[i]);
135 void ltrim (char *str)
144 while (('\0' != str[c]) && isspace(str[c]))
148 for(i=c; ('\0' != str[i]); i++)
154 void rtrim (char *str)
162 while ((nul > 0) && ((str[nul] == ' ') || (str[nul] == '\t')) ) {
168 void trim (char *str)
175 gmx_ctime_r(const time_t *clock,char *buf, int n)
179 #if ((defined WIN32 || defined _WIN32 || defined WIN64 || defined _WIN64) && !defined __CYGWIN__ && !defined __CYGWIN32__)
181 ctime_s( tmpbuf, STRLEN, clock );
183 ctime_r(clock,tmpbuf);
185 strncpy(buf,tmpbuf,n-1);
191 void nice_header (FILE *out,const char *fn)
193 const char *unk = "onbekend";
199 char timebuf[STRLEN];
204 /* Print a nice header above the file */
206 fprintf (out,"%c\n",COMMENTSIGN);
207 fprintf (out,"%c\tFile '%s' was generated\n",COMMENTSIGN,fn ? fn : unk);
212 gh = gethostname(buf,255);
219 gmx_ctime_r(&clock,timebuf,STRLEN);
220 fprintf (out,"%c\tBy user: %s (%d)\n",COMMENTSIGN,
221 user ? user : unk,(int) uid);
222 fprintf(out,"%c\tOn host: %s\n",COMMENTSIGN,(gh == 0) ? buf : unk);
224 fprintf (out,"%c\tAt date: %s",COMMENTSIGN,timebuf);
225 fprintf (out,"%c\n",COMMENTSIGN);
228 int gmx_strcasecmp_min(const char *str1, const char *str2)
235 ch1=toupper(*(str1++));
236 while ((ch1=='-') || (ch1=='_'));
238 ch2=toupper(*(str2++));
239 while ((ch2=='-') || (ch2=='_'));
240 if (ch1!=ch2) return (ch1-ch2);
246 int gmx_strncasecmp_min(const char *str1, const char *str2, int n)
256 ch1=toupper(*(str1++));
257 while ((ch1=='-') || (ch1=='_'));
259 ch2=toupper(*(str2++));
260 while ((ch2=='-') || (ch2=='_'));
261 if (ch1!=ch2) return (ch1-ch2);
263 while (ch1 && (str1-stri1<n) && (str2-stri2<n));
267 int gmx_strcasecmp(const char *str1, const char *str2)
273 ch1=toupper(*(str1++));
274 ch2=toupper(*(str2++));
275 if (ch1!=ch2) return (ch1-ch2);
281 int gmx_strncasecmp(const char *str1, const char *str2, int n)
290 ch1=toupper(*(str1++));
291 ch2=toupper(*(str2++));
292 if (ch1!=ch2) return (ch1-ch2);
299 char *gmx_strdup(const char *src)
303 snew(dest,strlen(src)+1);
310 gmx_strndup(const char *src, int n)
321 strncpy(dest, src, len);
327 * \param[in] pattern Pattern to match against.
328 * \param[in] str String to match.
329 * \returns 0 on match, GMX_NO_WCMATCH if there is no match.
331 * Matches \p str against \p pattern, which may contain * and ? wildcards.
332 * All other characters are matched literally.
333 * Currently, it is not possible to match literal * or ?.
336 gmx_wcmatch(const char *pattern, const char *str)
342 /* Skip multiple wildcards in a sequence */
343 while (*pattern == '*' || *pattern == '?')
346 /* For ?, we need to check that there are characters left
352 return GMX_NO_WCMATCH;
360 /* If the pattern ends after the star, we have a match */
365 /* Match the rest against each possible suffix of str */
368 /* Only do the recursive call if the first character
369 * matches. We don't have to worry about wildcards here,
370 * since we have processed them above. */
371 if (*pattern == *str)
374 /* Match the suffix, and return if a match or an error */
375 rc = gmx_wcmatch(pattern, str);
376 if (rc != GMX_NO_WCMATCH)
383 /* If no suffix of str matches, we don't have a match */
384 return GMX_NO_WCMATCH;
386 else if ((*pattern == '?' && *str != 0) || *pattern == *str)
392 return GMX_NO_WCMATCH;
396 /* When the pattern runs out, we have a match if the string has ended. */
397 return (*str == 0) ? 0 : GMX_NO_WCMATCH;
400 char *wrap_lines(const char *buf,int line_width, int indent,bool bIndentFirst)
403 int i,i0,i2,j,b2len,lspace=0,l2space=0;
404 bool bFirst,bFitsOnLine;
406 /* characters are copied from buf to b2 with possible spaces changed
407 * into newlines and extra space added for indentation.
408 * i indexes buf (source buffer) and i2 indexes b2 (destination buffer)
409 * i0 points to the beginning of the current line (in buf, source)
410 * lspace and l2space point to the last space on the current line
411 * bFirst is set to prevent indentation of first line
412 * bFitsOnLine says if the first space occurred before line_width, if
413 * that is not the case, we have a word longer than line_width which
414 * will also not fit on the next line, so we might as well keep it on
415 * the current line (where it also won't fit, but looks better)
419 b2len=strlen(buf)+1+indent;
423 for(i2=0; (i2<indent); i2++)
428 /* find the last space before end of line */
429 for(i=i0; ((i-i0 < line_width) || (l2space==-1)) && (buf[i]); i++) {
431 /* remember the position of a space */
436 /* if we have a newline before the line is full, reset counters */
437 if (buf[i]=='\n' && buf[i+1]) {
441 /* add indentation after the newline */
442 for(j=0; (j<indent); j++)
446 /* If we are at the last newline, copy it */
447 if (buf[i]=='\n' && !buf[i+1]) {
450 /* if we're not at the end of the string */
452 /* check if one word does not fit on the line */
453 bFitsOnLine = (i-i0 <= line_width);
454 /* reset line counters to just after the space */
457 /* if the words fit on the line, and we're beyond the indentation part */
458 if ( (bFitsOnLine) && (l2space >= indent) ) {
459 /* start a new line */
461 /* and add indentation */
469 for(j=0; (j<indent); j++)
471 /* no extra spaces after indent; */
483 char **split(char sep,char *str)
491 for(n=0; (n<nn); n++)
496 while (*str != '\0') {
497 while ((*str != '\0') && (*str == sep))
500 snew(ptr[nptr],1+strlen(str));
502 while ((*str != '\0') && (*str != sep)) {
518 str_to_large_int_t(const char *str, char **endptr)
521 gmx_large_int_t val = 0;
532 /* Strip off initial white space */
537 /* Conform to ISO C99 - return original pointer if string does not contain a number */
549 while( ((ch=*p) != '\0') && isdigit(ch) )
551 /* Important to add sign here, so we dont overflow in final multiplication */
556 /* Some sort of overflow has occured, set endptr to original string */
569 char *gmx_strsep(char **stringp, const char *delim)
572 int len=strlen(delim);
581 if ( (*stringp)[j] == '\0')
589 if ( (*stringp)[j]==delim[i])
592 *stringp=*stringp+j+1;