/*
+ * This file is part of the GROMACS molecular simulation package.
*
- * This source code is part of
+ * Copyright (c) 2012,2013,2014, by the GROMACS development team, led by
+ * Mark Abraham, David van der Spoel, Berk Hess, and Erik Lindahl,
+ * and including many others, as listed in the AUTHORS file in the
+ * top-level source directory and at http://www.gromacs.org.
*
- * G R O M A C S
- *
- * GROningen MAchine for Chemical Simulations
+ * GROMACS is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU Lesser General Public License
+ * as published by the Free Software Foundation; either version 2.1
+ * of the License, or (at your option) any later version.
*
- * Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
- * Copyright (c) 1991-2000, University of Groningen, The Netherlands.
- * Copyright (c) 2001-2009, The GROMACS development team,
- * check out http://www.gromacs.org for more information.
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+ * Lesser General Public License for more details.
*
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
+ * You should have received a copy of the GNU Lesser General Public
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*
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- * files - if they are missing, get the official version at www.gromacs.org.
+ * If you want to redistribute modifications to GROMACS, please
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*
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- *
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+ * the research papers on the package. Check out http://www.gromacs.org.
*/
/*! \internal \file
* \brief
* Implements gmx::File.
*
- * \author Teemu Murtola <teemu.murtola@cbr.su.se>
+ * \author Teemu Murtola <teemu.murtola@gmail.com>
* \ingroup module_utility
*/
+#include "gmxpre.h"
+
#include "file.h"
+#include "config.h"
+
#include <cerrno>
#include <cstdio>
#include <cstring>
#include <string>
#include <vector>
+#include <sys/stat.h>
+
+#ifdef HAVE_UNISTD_H
+#include <unistd.h>
+#endif
+
#include "gromacs/utility/exceptions.h"
#include "gromacs/utility/gmxassert.h"
-#include "gromacs/utility/format.h"
+#include "gromacs/utility/stringutil.h"
namespace gmx
{
/*! \brief
* Initialize a file object with the given handle.
*
- * \param[in] fp File handle to use (may be NULL).
+ * \param[in] fp %File handle to use (may be NULL).
* \param[in] bClose Whether this object should close its file handle.
*/
Impl(FILE *fp, bool bClose);
{
GMX_RELEASE_ASSERT(impl_->fp_ == NULL,
"Attempted to open the same file object twice");
- // TODO: Port all necessary functionality from ffopen() here.
+ // TODO: Port all necessary functionality from gmx_ffopen() here.
impl_->fp_ = fopen(filename, mode);
if (impl_->fp_ == NULL)
{
}
}
+bool File::isInteractive() const
+{
+ GMX_RELEASE_ASSERT(impl_->fp_ != NULL,
+ "Attempted to access a file object that is not open");
+#ifdef HAVE_UNISTD_H
+ return isatty(fileno(impl_->fp_));
+#else
+ return true;
+#endif
+}
+
FILE *File::handle()
{
GMX_RELEASE_ASSERT(impl_->fp_ != NULL,
void File::readBytes(void *buffer, size_t bytes)
{
errno = 0;
- FILE *fp = handle();
+ FILE *fp = handle();
// TODO: Retry based on errno or something else?
size_t bytesRead = std::fread(buffer, 1, bytes, fp);
if (bytesRead != bytes)
if (feof(fp))
{
GMX_THROW(FileIOError(
- formatString("Premature end of file\n"
- "Attempted to read: %d bytes\n"
- "Successfully read: %d bytes",
- static_cast<int>(bytes),
- static_cast<int>(bytesRead))));
+ formatString("Premature end of file\n"
+ "Attempted to read: %d bytes\n"
+ "Successfully read: %d bytes",
+ static_cast<int>(bytes),
+ static_cast<int>(bytesRead))));
}
else
{
}
}
+bool File::readLine(std::string *line)
+{
+ if (!readLineWithTrailingSpace(line))
+ {
+ return false;
+ }
+ size_t endPos = line->find_last_not_of(" \t\r\n");
+ if (endPos != std::string::npos)
+ {
+ line->resize(endPos + 1);
+ }
+ return true;
+}
+
+bool File::readLineWithTrailingSpace(std::string *line)
+{
+ line->clear();
+ const size_t bufsize = 256;
+ std::string result;
+ char buf[bufsize];
+ buf[0] = '\0';
+ FILE *fp = handle();
+ while (fgets(buf, bufsize, fp) != NULL)
+ {
+ size_t length = std::strlen(buf);
+ result.append(buf, length);
+ if (length < bufsize - 1 || buf[length - 1] == '\n')
+ {
+ break;
+ }
+ }
+ if (ferror(fp))
+ {
+ GMX_THROW_WITH_ERRNO(FileIOError("Error while reading file"),
+ "fgets", errno);
+ }
+ *line = result;
+ return !result.empty() || !feof(fp);
+}
+
void File::writeString(const char *str)
{
if (fprintf(handle(), "%s", str) < 0)
writeString("\n");
}
+// static
+bool File::exists(const char *filename)
+{
+ if (filename == NULL)
+ {
+ return false;
+ }
+ FILE *test = fopen(filename, "r");
+ if (test == NULL)
+ {
+ return false;
+ }
+ else
+ {
+ fclose(test);
+ // Windows doesn't allow fopen of directory, so we don't need to check
+ // this separately.
+#ifndef GMX_NATIVE_WINDOWS
+ struct stat st_buf;
+ int status = stat(filename, &st_buf);
+ if (status != 0 || !S_ISREG(st_buf.st_mode))
+ {
+ return false;
+ }
+#endif
+ return true;
+ }
+}
+
+// static
+bool File::exists(const std::string &filename)
+{
+ return exists(filename.c_str());
+}
+
+// static
+File &File::standardInput()
+{
+ static File stdinObject(stdin, false);
+ return stdinObject;
+}
+
+// static
+File &File::standardOutput()
+{
+ static File stdoutObject(stdout, false);
+ return stdoutObject;
+}
+
// static
File &File::standardError()
{
{
// Binary mode is required on Windows to be able to determine a size
// that can be passed to fread().
- File file(filename, "rb");
+ File file(filename, "rb");
FILE *fp = file.handle();
if (std::fseek(fp, 0L, SEEK_END) != 0)
return readToString(filename.c_str());
}
+// static
+void File::writeFileFromString(const std::string &filename,
+ const std::string &text)
+{
+ File file(filename, "w");
+ file.writeString(text);
+}
+
} // namespace gmx
biod.pnpi.spb.ru / alexxy / gromacs.git / blobdiff