4898794edd81be5285ea6e544acbedeaeb31bf78 max Tue Nov 23 08:10:57 2021 -0800 Fixing pointers to README file for license in all source code files. refs #27614 diff --git src/hg/sageVisCGI/gnuplot_i.c src/hg/sageVisCGI/gnuplot_i.c index fee2620..b3dc0d2 100644 --- src/hg/sageVisCGI/gnuplot_i.c +++ src/hg/sageVisCGI/gnuplot_i.c @@ -1,787 +1,787 @@ /* Copyright (C) 2005 The Regents of the University of California - * See README in this or parent directory for licensing information. */ + * See kent/LICENSE or http://genome.ucsc.edu/license/ for licensing information. */ /*---------------------------------------------------------------------------- File name : gnuplot_i.c Author : N. Devillard Created on : Fri Sept 26 1997 Description : C interface to gnuplot gnuplot is a freely available, command-driven graphical display tool for Unix. It compiles and works quite well on a number of Unix flavours as well as other operating systems. The following module enables sending display requests to gnuplot through simple C calls. ---------------------------------------------------------------------------*/ /* $Id: gnuplot_i.c,v 1.1 2005/10/20 23:52:24 hiram Exp $ $Author: hiram $ $Date: 2005/10/20 23:52:24 $ $Revision: 1.1 $ */ /*--------------------------------------------------------------------------- Includes ---------------------------------------------------------------------------*/ #include "gnuplot_i.h" /*--------------------------------------------------------------------------- Defines ---------------------------------------------------------------------------*/ /* Maximal size of a gnuplot command */ #define GP_CMD_SIZE 2048 /* Maximal size of a plot title */ #define GP_TITLE_SIZE 80 /* Maximal size for an equation */ #define GP_EQ_SIZE 512 /*--------------------------------------------------------------------------- Function codes ---------------------------------------------------------------------------*/ /*-------------------------------------------------------------------------*/ /** @name check_X_display @memo Checks out if the DISPLAY environment variable is set. @param activate int flag @return int 1 if the variable is set, 0 otherwise. @doc This function checks out the DISPLAY environment variable to see if it exists. It does not check if the display is actually correctly configured. If you do not want to activate this check (e.g. on systems that do not support this kind of display mechanism), pass a 0 integer as the activate flag. Any other value will activate it. */ /*--------------------------------------------------------------------------*/ int check_X_display(int activate) { char * display ; if (!activate) return 1 ; display = getenv("DISPLAY") ; if (display == NULL) { fprintf(stderr, "cannot find DISPLAY variable: is it set?\n") ; return 1 ; } else { return 0 ; } } /*-------------------------------------------------------------------------*/ /** @name gnuplot_get_program_path @memo Find out where a command lives in your PATH. @param pname Name of the program to look for. @return pointer to statically allocated character string. @doc This is the C equivalent to the 'which' command in Unix. It parses out your PATH environment variable to find out where a command lives. The returned character string is statically allocated within this function, i.e. there is no need to free it. Beware that the contents of this string will change from one call to the next, though (as all static variables in a function). The input character string must be the name of a command without prefixing path of any kind, i.e. only the command name. The returned string is the path in which a command matching the same name was found. Examples (assuming there is a prog named 'hello' in the cwd): \begin{itemize} \item gnuplot_get_program_path("hello") returns "." \item gnuplot_get_program_path("ls") returns "/bin" \item gnuplot_get_program_path("csh") returns "/usr/bin" \item gnuplot_get_program_path("/bin/ls") returns NULL \end{itemize} */ /*-------------------------------------------------------------------------*/ #define MAXNAMESZ 4096 char * gnuplot_get_program_path(char * pname) { int i, j, lg; char * path; static char buf[MAXNAMESZ]; /* Trivial case: try in CWD */ sprintf(buf, "./%s", pname) ; if (access(buf, X_OK)==0) { sprintf(buf, "."); return buf ; } /* Try out in all paths given in the PATH variable */ buf[0] = 0; path = getenv("PATH") ; if (path!=NULL) { for (i=0; path[i]; ) { for (j=i ; (path[j]) && (path[j]!=':') ; j++); lg = j - i; strncpy(buf, path + i, lg); if (lg == 0) buf[lg++] = '.'; buf[lg++] = '/'; strcpy(buf + lg, pname); if (access(buf, X_OK) == 0) { /* Found it! */ break ; } buf[0] = 0; i = j; if (path[i] == ':') i++ ; } } else { fprintf(stderr, "PATH variable not set\n"); } /* If the buffer is still empty, the command was not found */ if (buf[0] == 0) return NULL ; /* Otherwise truncate the command name to yield path only */ lg = strlen(buf) - 1 ; while (buf[lg]!='/') { buf[lg]=0 ; lg -- ; } buf[lg] = 0; return buf ; } #undef MAXNAMESZ /*-------------------------------------------------------------------------*/ /** @name gnuplot_init @memo Opens up a gnuplot session, ready to receive commands. @return Newly allocated gnuplot control structure. @doc This opens up a new gnuplot session, ready for input. The struct controlling a gnuplot session should remain opaque and only be accessed through the provided functions. */ /*--------------------------------------------------------------------------*/ gnuplot_ctrl * gnuplot_init(void) { gnuplot_ctrl * handle ; if (check_X_display(1)) return NULL ; if (gnuplot_get_program_path("gnuplot")==NULL) { fprintf(stderr, "cannot find gnuplot in your PATH"); return NULL ; } /* * Structure initialization: */ handle = malloc(sizeof(gnuplot_ctrl)) ; handle->nplots = 0 ; gnuplot_setstyle(handle, "points") ; handle->ntmp = 0 ; handle->gnucmd = popen("gnuplot", "w") ; if (handle->gnucmd == NULL) { fprintf(stderr, "error starting gnuplot\n") ; free(handle) ; return NULL ; } return handle; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_close @memo Closes a gnuplot session previously opened by gnuplot_init() @param handle Gnuplot session control handle. @return void @doc Kills the child PID and deletes all opened temporary files. It is mandatory to call this function to close the handle, otherwise temporary files are not cleaned and child process might survive. */ /*--------------------------------------------------------------------------*/ void gnuplot_close(gnuplot_ctrl * handle) { int i ; if (check_X_display(1)) return ; if (handle->ntmp) { for (i=0 ; i<handle->ntmp ; i++) { remove(handle->to_delete[i]) ; } } if (pclose(handle->gnucmd) == -1) { fprintf(stderr, "problem closing communication to gnuplot\n") ; return ; } free(handle) ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_cmd @memo Sends a command to an active gnuplot session. @param handle Gnuplot session control handle @param cmd Command to send, same as a printf statement. @return void @doc This sends a string to an active gnuplot session, to be executed. There is strictly no way to know if the command has been successfully executed or not. The command syntax is the same as printf. Examples: \begin{itemize} \item gnuplot_cmd(g, "plot %d*x", 23.0); \item gnuplot_cmd(g, "plot %g * cos(%g * x)", 32.0, -3.0); \end{itemize} */ /*--------------------------------------------------------------------------*/ void gnuplot_cmd(gnuplot_ctrl * handle, char * cmd, ...) { va_list ap ; char local_cmd[GP_CMD_SIZE]; va_start(ap, cmd); vsprintf(local_cmd, cmd, ap); va_end(ap); strcat(local_cmd, "\n"); fputs(local_cmd, handle->gnucmd) ; fflush(handle->gnucmd) ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_setstyle @memo Change the plotting style of a gnuplot session. @param h Gnuplot session control handle @param plot_style Plotting-style to use (character string) @return void @doc The provided plotting style is a character string. It must be one of the following: \begin{itemize} \item {\it lines} \item {\it points} \item {\it linespoints} \item {\it impulses} \item {\it dots} \item {\it steps} \item {\it errorbars} \item {\it boxes} \item {\it boxeserrorbars} \end{itemize} */ /*--------------------------------------------------------------------------*/ void gnuplot_setstyle(gnuplot_ctrl * h, char * plot_style) { if (strcmp(plot_style, "lines") && strcmp(plot_style, "points") && strcmp(plot_style, "linespoints") && strcmp(plot_style, "impulses") && strcmp(plot_style, "dots") && strcmp(plot_style, "steps") && strcmp(plot_style, "errorbars") && strcmp(plot_style, "boxes") && strcmp(plot_style, "boxerrorbars")) { fprintf(stderr, "warning: unknown requested style: using points\n") ; strcpy(h->pstyle, "points") ; } else { strcpy(h->pstyle, plot_style) ; } return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_set_xlabel @memo Sets the x label of a gnuplot session. @param h Gnuplot session control handle. @param label Character string to use for X label. @return void @doc Sets the x label for a gnuplot session. */ /*--------------------------------------------------------------------------*/ void gnuplot_set_xlabel(gnuplot_ctrl * h, char * label) { char cmd[GP_CMD_SIZE] ; sprintf(cmd, "set xlabel \"%s\"", label) ; gnuplot_cmd(h, cmd) ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_set_ylabel @memo Sets the y label of a gnuplot session. @param h Gnuplot session control handle. @param label Character string to use for Y label. @return void @doc Sets the y label for a gnuplot session. */ /*--------------------------------------------------------------------------*/ void gnuplot_set_ylabel(gnuplot_ctrl * h, char * label) { char cmd[GP_CMD_SIZE] ; sprintf(cmd, "set ylabel \"%s\"", label) ; gnuplot_cmd(h, cmd) ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_resetplot @memo Resets a gnuplot session (next plot will erase previous ones). @param h Gnuplot session control handle. @return void @doc Resets a gnuplot session, i.e. the next plot will erase all previous ones. */ /*--------------------------------------------------------------------------*/ void gnuplot_resetplot(gnuplot_ctrl * h) { int i ; if (h->ntmp) { for (i=0 ; i<h->ntmp ; i++) { remove(h->to_delete[i]) ; } } h->ntmp = 0 ; h->nplots = 0 ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_plot_x @memo Plots a 2d graph from a list of doubles. @param handle Gnuplot session control handle. @param d Array of doubles. @param n Number of values in the passed array. @param title Title of the plot. @return void @doc Plots out a 2d graph from a list of doubles. The x-coordinate is the index of the double in the list, the y coordinate is the double in the list. Example: \begin{verbatim} gnuplot_ctrl *h ; double d[50] ; int i ; h = gnuplot_init() ; for (i=0 ; i<50 ; i++) { d[i] = (double)(i*i) ; } gnuplot_plot_x(h, d, 50, "parabola") ; sleep(2) ; gnuplot_close(h) ; \end{verbatim} */ /*--------------------------------------------------------------------------*/ void gnuplot_plot_x( gnuplot_ctrl * handle, double * d, int n, char * title ) { int i ; FILE * tmp ; char * name ; char cmd[GP_CMD_SIZE] ; char line[GP_CMD_SIZE] ; if (handle==NULL || d==NULL || (n<1)) return ; /* can we open one more temporary file? */ if (handle->ntmp == GP_MAX_TMP_FILES - 1) { fprintf(stderr, "maximum # of temporary files reached (%d): cannot open more", GP_MAX_TMP_FILES) ; return ; } /* Open temporary file for output */ if ((name = tmpnam(NULL)) == NULL) { fprintf(stderr,"cannot create temporary file: exiting plot") ; return ; } if ((tmp = fopen(name, "w")) == NULL) { fprintf(stderr, "cannot create temporary file: exiting plot") ; return ; } /* Store file name in array for future deletion */ strcpy(handle->to_delete[handle->ntmp], name) ; handle->ntmp ++ ; /* Write data to this file */ for (i=0 ; i<n ; i++) { fprintf(tmp, "%g\n", d[i]) ; } fflush(tmp) ; fclose(tmp) ; /* Command to be sent to gnuplot */ if (handle->nplots > 0) { strcpy(cmd, "replot") ; } else { strcpy(cmd, "plot") ; } if (title == NULL) { sprintf(line, "%s \"%s\" with %s", cmd, name, handle->pstyle) ; } else { sprintf(line, "%s \"%s\" title \"%s\" with %s", cmd, name, title, handle->pstyle) ; } /* send command to gnuplot */ gnuplot_cmd(handle, line) ; handle->nplots++ ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_plot_xy @memo Plot a 2d graph from a list of points. @param handle Gnuplot session control handle. @param x Pointer to a list of x coordinates. @param y Pointer to a list of y coordinates. @param n Number of doubles in x (assumed the same as in y). @param title Title of the plot. @return void @doc Plots out a 2d graph from a list of points. Provide points through a list of x and a list of y coordinates. Both provided arrays are assumed to contain the same number of values. \begin{verbatim} gnuplot_ctrl *h ; double x[50] ; double y[50] ; int i ; h = gnuplot_init() ; for (i=0 ; i<50 ; i++) { x[i] = (double)(i)/10.0 ; y[i] = x[i] * x[i] ; } gnuplot_plot1_xy(h, x, y, 50, "parabola") ; sleep(2) ; gnuplot_close(h) ; \end{verbatim} */ /*--------------------------------------------------------------------------*/ void gnuplot_plot_xy( gnuplot_ctrl * handle, double * x, double * y, int n, char * title ) { int i ; FILE * tmp ; char * name ; char cmd[GP_CMD_SIZE] ; char line[GP_CMD_SIZE] ; if (handle==NULL || x==NULL || y==NULL || (n<1)) return ; /* can we open one more temporary file? */ if (handle->ntmp == GP_MAX_TMP_FILES - 1) { fprintf(stderr, "maximum # of temporary files reached (%d): cannot open more", GP_MAX_TMP_FILES) ; return ; } /* Open temporary file for output */ if ((name = tmpnam(NULL)) == (char*)NULL) { fprintf(stderr,"cannot create temporary file: exiting plot") ; return ; } if ((tmp = fopen(name, "w")) == NULL) { fprintf(stderr,"cannot create temporary file: exiting plot") ; return ; } /* Store file name in array for future deletion */ strcpy(handle->to_delete[handle->ntmp], name) ; handle->ntmp ++ ; /* Write data to this file */ for (i=0 ; i<n; i++) { fprintf(tmp, "%g %g\n", x[i], y[i]) ; } fflush(tmp) ; fclose(tmp) ; /* Command to be sent to gnuplot */ if (handle->nplots > 0) { strcpy(cmd, "replot") ; } else { strcpy(cmd, "plot") ; } if (title == NULL) { sprintf(line, "%s \"%s\" with %s", cmd, name, handle->pstyle) ; } else { sprintf(line, "%s \"%s\" title \"%s\" with %s", cmd, name, title, handle->pstyle) ; } /* send command to gnuplot */ gnuplot_cmd(handle, line) ; handle->nplots++ ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_plot_once @memo Open a new session, plot a signal, close the session. @param title Plot title @param style Plot style @param label_x Label for X @param label_y Label for Y @param x Array of X coordinates @param y Array of Y coordinates (can be NULL) @param n Number of values in x and y. @return @doc This function opens a new gnuplot session, plots the provided signal as an X or XY signal depending on a provided y, waits for a carriage return on stdin and closes the session. It is Ok to provide an empty title, empty style, or empty labels for X and Y. Defaults are provided in this case. */ /*--------------------------------------------------------------------------*/ void gnuplot_plot_once( char * title, char * style, char * label_x, char * label_y, double * x, double * y, int n ) { gnuplot_ctrl * handle ; if (x==NULL || n<1) return ; handle = gnuplot_init(); if (style!=NULL) { gnuplot_setstyle(handle, style); } else { gnuplot_setstyle(handle, "lines"); } if (label_x!=NULL) { gnuplot_set_xlabel(handle, label_x); } else { gnuplot_set_xlabel(handle, "X"); } if (label_y!=NULL) { gnuplot_set_ylabel(handle, label_y); } else { gnuplot_set_ylabel(handle, "Y"); } if (y==NULL) { gnuplot_plot_x(handle, x, n, title); } else { gnuplot_plot_xy(handle, x, y, n, title); } printf("press ENTER to continue\n"); while (getchar()!='\n') {} gnuplot_close(handle); return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_plot_slope @memo Plot a slope on a gnuplot session. @param handle Gnuplot session control handle. @param a Slope. @param b Intercept. @param title Title of the plot. @return void @doc Plot a slope on a gnuplot session. The provided slope has an equation of the form: \begin{verbatim} y = ax+b \end{verbatim} Example: \begin{verbatim} gnuplot_ctrl * h ; double a, b ; h = gnuplot_init() ; gnuplot_plot_slope(h, 1.0, 0.0, "unity slope") ; sleep(2) ; gnuplot_close(h) ; \end{verbatim} */ /*--------------------------------------------------------------------------*/ void gnuplot_plot_slope( gnuplot_ctrl * handle, double a, double b, char * title ) { char stitle[GP_TITLE_SIZE] ; char cmd[GP_CMD_SIZE] ; if (title == NULL) { strcpy(stitle, "no title") ; } else { strcpy(stitle, title) ; } if (handle->nplots > 0) { sprintf(cmd, "replot %g * x + %g title \"%s\" with %s", a, b, title, handle->pstyle) ; } else { sprintf(cmd, "plot %g * x + %g title \"%s\" with %s", a, b, title, handle->pstyle) ; } gnuplot_cmd(handle, cmd) ; handle->nplots++ ; return ; } /*-------------------------------------------------------------------------*/ /** @name gnuplot_plot_equation @memo Plot a curve of given equation y=f(x). @param h Gnuplot session control handle. @param equation Equation to plot. @param title Title of the plot. @return void @doc Plots out a curve of given equation. The general form of the equation is y=f(x), you only provide the f(x) side of the equation. Example: \begin{verbatim} gnuplot_ctrl *h ; char eq[80] ; h = gnuplot_init() ; strcpy(eq, "sin(x) * cos(2*x)") ; gnuplot_plot_equation(h, eq, "sine wave", normal) ; gnuplot_close(h) ; \end{verbatim} */ /*--------------------------------------------------------------------------*/ void gnuplot_plot_equation( gnuplot_ctrl * h, char * equation, char * title ) { char cmd[GP_CMD_SIZE]; char plot_str[GP_EQ_SIZE] ; char title_str[GP_TITLE_SIZE] ; if (title == NULL) { strcpy(title_str, "no title") ; } else { strcpy(title_str, title) ; } if (h->nplots > 0) { strcpy(plot_str, "replot") ; } else { strcpy(plot_str, "plot") ; } sprintf(cmd, "%s %s title \"%s\" with %s", plot_str, equation, title_str, h->pstyle) ; gnuplot_cmd(h, cmd) ; h->nplots++ ; return ; }