int main(void)
{
struct score tmp, *data;
int i;
srand(getpid());
init();
for (i = 0; i < 1024 * 1024; i++) {
tmp.id = i;
tmp.ch = 100 - i;
//snprintf(tmp.name, NAMESIZE, "stu%d", i);
rand_name(tmp.name, NAMESIZE);
insert(&tmp);
}
//data = search("stu6");
//printf("%d %s %d\n", data->id, data->name, data->ch);
travel();
return 0;
}
void run_impl() const {
BlockSet& bs = *block_set();
std::vector<SequencePtr> seqs = bs.seqs();
int min_length = opt_value("blast-min-length").as<int>();
std::set<std::string> names;
BOOST_FOREACH (const SequencePtr& seq, seqs) {
seq->set_description("");
if (seq->size() < min_length) {
bs.remove_sequence(seq);
} else {
if (seq->name().length() > 16) {
seq->set_name("");
}
while (seq->name().empty() ||
names.find(seq->name()) != names.end()) {
const int RAND_SEQ_NAME_LENGTH = 8;
seq->set_name(rand_name(RAND_SEQ_NAME_LENGTH));
}
names.insert(seq->name());
}
}
/* The main testing program
*/
int
main(int argc, char **argv)
{
int i, j, k;
int chunksize;
int readsize;
char *buffer;
char fixedbuf[1024];
int fds[MAX_FD];
char *names[MAX_FD];
int filesize[MAX_FD];
int nopen; /* Number of files simultaneously open */
int ncreate; /* Number of files created in directory */
int error_count = 0;
int tmp;
mksfs(1); /* Initialize the file system. */
/* First we open two files and attempt to write data to them.
*/
for (i = 0; i < 2; i++) {
names[i] = rand_name();
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
fprintf(stderr, "ERROR: creating first test file %s\n", names[i]);
error_count++;
}
tmp = sfs_fopen(names[i]);
if (tmp >= 0 && tmp != fds[i]) {
fprintf(stderr, "ERROR: file %s was opened twice\n", names[i]);
error_count++;
}
filesize[i] = (rand() % (MAX_BYTES-MIN_BYTES)) + MIN_BYTES;
}
for (i = 0; i < 2; i++) {
for (j = i + 1; j < 2; j++) {
if (fds[i] == fds[j]) {
fprintf(stderr, "Warning: the file descriptors probably shouldn't be the same?\n");
}
}
}
printf("Two files created with zero length:\n");
for (i = 0; i < 2; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
for (k = 0; k < chunksize; k++) {
buffer[k] = (char) (j+k);
}
// printf("////%d//%d\n", (int)strlen(buffer),chunksize);
// printf("++++%s\n", buffer);
tmp = sfs_fwrite(fds[i], buffer, chunksize);
if (tmp != chunksize) {
fprintf(stderr, "ERROR: Tried to write %d bytes, but wrote %d\n",
chunksize, tmp);
error_count++;
}
free(buffer);
}
}
if (sfs_fclose(fds[1]) != 0) {
fprintf(stderr, "ERROR: close of handle %d failed\n", fds[1]);
error_count++;
}
/* Sneaky attempt to close already closed file handle. */
if (sfs_fclose(fds[1]) == 0) {
fprintf(stderr, "ERROR: close of stale handle %d succeeded\n", fds[1]);
error_count++;
}
printf("File %s now has length %d and %s now has length %d:\n",
names[0], filesize[0], names[1], filesize[1]);
/* Just to be cruel - attempt to read from a closed file handle.
*/
if (sfs_fread(fds[1], fixedbuf, sizeof(fixedbuf)) > 0) {
fprintf(stderr, "ERROR: read from a closed file handle?\n");
error_count++;
}
fds[1] = sfs_fopen(names[1]);
sfs_fseek(0, 0);
sfs_fseek(1, 0);
for (i = 0; i < 2; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
readsize = sfs_fread(fds[i], buffer, chunksize);
if (readsize != chunksize) {
fprintf(stderr, "ERROR: Requested %d bytes, read %d\n", chunksize, readsize);
readsize = chunksize;
}
for (k = 0; k < readsize; k++) {
if (buffer[k] != (char)(j+k)) {
fprintf(stderr, "ERROR: data error at offset %d in file %s (%d,%d)\n",
j+k, names[i], buffer[k], (char)(j+k));
error_count++;
break;
}
}
free(buffer);
}
}
for (i = 0; i < 2; i++) {
if (sfs_fclose(fds[i]) != 0) {
fprintf(stderr, "ERROR: closing file %s\n", names[i]);
error_count++;
}
}
/* Now try to close the files. Don't
* care about the return codes, really, but just want to make sure
* this doesn't cause a problem.
*/
for (i = 0; i < 2; i++) {
if (sfs_fclose(fds[i]) == 0) {
fprintf(stderr, "Warning: closing already closed file %s\n", names[i]);
}
}
/* Now just try to open up a bunch of files.
*/
ncreate = 0;
for (i = 0; i < MAX_FD; i++) {
names[i] = rand_name();
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
break;
}
sfs_fclose(fds[i]);
ncreate++;
}
printf("Created %d files in the root directory\n", ncreate);
nopen = 0;
for (i = 0; i < ncreate; i++) {
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
break;
}
nopen++;
}
printf("Simultaneously opened %d files\n", nopen);
for (i = 0; i < nopen; i++) {
tmp = sfs_fwrite(fds[i], test_str, strlen(test_str));
if (tmp != strlen(test_str)) {
fprintf(stderr, "ERROR: Tried to write %d, returned %d\n",
(int)strlen(test_str), tmp);
error_count++;
}
if (sfs_fclose(fds[i]) != 0) {
fprintf(stderr, "ERROR: close of handle %d failed\n", fds[i]);
error_count++;
}
}
/* Re-open in reverse order */
for (i = nopen-1; i >= 0; i--) {
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
fprintf(stderr, "ERROR: can't re-open file %s\n", names[i]);
}
}
/* Now test the file contents.
*/
for (i = 0; i < nopen; i++) {
sfs_fseek(fds[i], 0);
}
for (j = 0; j < strlen(test_str); j++) {
for (i = 0; i < nopen; i++) {
char ch;
if (sfs_fread(fds[i], &ch, 1) != 1) {
fprintf(stderr, "ERROR: Failed to read 1 character\n");
error_count++;
}
if (ch != test_str[j]) {
fprintf(stderr, "ERROR: Read wrong byte from %s at %d (%d,%d)\n",
names[i], j, ch, test_str[j]);
error_count++;
break;
}
}
}
/* Now close all of the open file handles.
*/
for (i = 0; i < nopen; i++) {
if (sfs_fclose(fds[i]) != 0) {
fprintf(stderr, "ERROR: close of handle %d failed\n", fds[i]);
error_count++;
}
}
/* Now we try to re-initialize the system.
*/
mksfs(0);
for (i = 0; i < nopen; i++) {
fds[i] = sfs_fopen(names[i]);
sfs_fseek(fds[i], 0);
if (fds[i] >= 0) {
readsize = sfs_fread(fds[i], fixedbuf, sizeof(fixedbuf));
if (readsize != strlen(test_str)) {
fprintf(stderr, "ERROR: Read wrong number of bytes\n");
error_count++;
}
for (j = 0; j < strlen(test_str); j++) {
if (test_str[j] != fixedbuf[j]) {
fprintf(stderr, "ERROR: Wrong byte in %s at %d (%d,%d)\n",
names[i], j, fixedbuf[j], test_str[j]);
printf("%d\n", fixedbuf[1]);
error_count++;
break;
}
}
if (sfs_fclose(fds[i]) != 0) {
fprintf(stderr, "ERROR: close of handle %d failed\n", fds[i]);
error_count++;
}
}
}
printf("Trying to fill up the disk with repeated writes to %s.\n", names[0]);
printf("(This may take a while).\n");
/* Now try opening the first file, and just write a huge bunch of junk.
* This is just to try to fill up the disk, to see what happens.
*/
fds[0] = sfs_fopen(names[0]);
if (fds[0] >= 0) {
for (i = 0; i < 100000; i++) {
int x;
if ((i % 100) == 0) {
fprintf(stderr, "%d\r", i);
}
memset(fixedbuf, (char)i, sizeof(fixedbuf));
x = sfs_fwrite(fds[0], fixedbuf, sizeof(fixedbuf));
if (x != sizeof(fixedbuf)) {
/* Sooner or later, this write should fail. The only thing is that
* it should fail gracefully, without any catastrophic errors.
*/
printf("Write failed after %d iterations.\n", i);
printf("If the emulated disk contains just over %d bytes, this is OK\n",
(i * (int)sizeof(fixedbuf)));
break;
}
}
sfs_fclose(fds[0]);
}
else {
fprintf(stderr, "ERROR: re-opening file %s\n", names[0]);
}
/* Now, having filled up the disk, try one more time to read the
* contents of the files we created.
*/
for (i = 0; i < nopen; i++) {
fds[i] = sfs_fopen(names[i]);
sfs_fseek(fds[i], 0);
if (fds[i] >= 0) {
readsize = sfs_fread(fds[i], fixedbuf, sizeof(fixedbuf));
if (readsize < strlen(test_str)) {
fprintf(stderr, "ERROR: Read wrong number of bytes\n");
error_count++;
}
for (j = 0; j < strlen(test_str); j++) {
if (test_str[j] != fixedbuf[j]) {
fprintf(stderr, "ERROR: Wrong byte in %s at position %d (%d,%d)\n",
names[i], j, fixedbuf[j], test_str[j]);
error_count++;
break;
}
}
if (sfs_fclose(fds[i]) != 0) {
fprintf(stderr, "ERROR: close of handle %d failed\n", fds[i]);
error_count++;
}
}
}
fprintf(stderr, "Test program exiting with %d errors\n", error_count);
return (error_count);
}
/* The main testing program
*/
int
main(int argc, char **argv)
{
int i, j, k;
int chunksize;
char *buffer;
char fixedbuf[1024];
int fds[MAX_FD];
char *names[MAX_FD];
int filesize[MAX_FD];
int nopen; /* Number of files simultaneously open */
int ncreate; /* Number of files created in directory */
int error_count = 0;
int tmp;
mksfs(1); /* Initialize the file system. */
/* First we open two files and attempt to write data to them.
*/
for (i = 0; i < 2; i++) {
names[i] = rand_name();
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
fprintf(stderr, "ERROR: creating first test file %s\n", names[i]);
error_count++;
}
tmp = sfs_fopen(names[i]);
if (tmp >= 0 && tmp != fds[i]) {
fprintf(stderr, "ERROR: file %s was opened twice\n", names[i]);
error_count++;
}
filesize[i] = (rand() % (MAX_BYTES-MIN_BYTES)) + MIN_BYTES;
}
for (i = 0; i < 2; i++) {
for (j = i + 1; j < 2; j++) {
if (fds[i] == fds[j]) {
fprintf(stderr, "Warning: the file descriptors probably shouldn't be the same?\n");
}
}
}
printf("Two files created with zero length:\n");
sfs_ls();
printf("\n");
for (i = 0; i < 2; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
for (k = 0; k < chunksize; k++) {
buffer[k] = (char) (j+k);
}
printf("file: %d, chunksize: %d\n", i, chunksize);
sfs_ls();
sfs_fwrite(fds[i], buffer, chunksize);
free(buffer);
}
}
sfs_fclose(fds[1]);
printf("File %s now has length %d and %s now has length %d:\n",
names[0], filesize[0], names[1], filesize[1]);
sfs_ls();
fds[1] = sfs_fopen(names[1]);
printf("before doing reads\n\n");
for (i = 0; i < 2; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
printf("before sfs_read\n\n");
sfs_fread(fds[i], buffer, chunksize);
printf("After sfs_read\n\n");
/*
for (k = 0; k < chunksize; k++) {
if (buffer[k] != (char)(j+k)) {
fprintf(stderr, "ERROR: data error at offset %d in file %s (%d,%d)\n",
j+k, names[i], buffer[k], (char)(j+k));
error_count++;
break;
}
}
*/
free(buffer);
printf("After doing reads %d\n\n", i);
}
}
printf("After doing reads\n\n");
for (i = 0; i < 2; i++) {
sfs_fclose(fds[i]);
if (sfs_remove(names[i]) != 0) {
fprintf(stderr, "ERROR: deleting file %s\n", names[i]);
error_count++;
}
printf("After deleting file %s:\n", names[i]);
sfs_ls();
}
/* Now try to close and delete the closed and deleted files. Don't
* care about the return codes, really, but just want to make sure
* this doesn't cause a problem.
*/
for (i = 0; i < 2; i++) {
sfs_fclose(fds[i]);
if (sfs_remove(names[i]) == 0) {
fprintf(stderr, "Warning: deleting already deleted file %s\n", names[i]);
}
//free(names[i]);
names[i] = NULL;
}
/* Now just try to open up a bunch of files.
*/
ncreate = 0;
for (i = 0; i < MAX_FD; i++) {
names[i] = rand_name();
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
break;
}
sfs_fclose(fds[i]);
ncreate++;
}
printf("Created %d files in the root directory\n", ncreate);
nopen = 0;
for (i = 0; i < ncreate; i++) {
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
break;
}
nopen++;
}
printf("Simultaneously opened %d files\n", nopen);
for (i = 0; i < nopen; i++) {
sfs_fwrite(fds[i], test_str, strlen(test_str));
sfs_fclose(fds[i]);
}
/* Re-open in reverse order */
for (i = nopen-1; i >= 0; i--) {
fds[i] = sfs_fopen(names[i]);
if (fds[i] < 0) {
fprintf(stderr, "ERROR: can't re-open file %s\n", names[i]);
}
}
/* Now test the file contents.
*/
for (j = 0; j < strlen(test_str); j++) {
for (i = 0; i < nopen; i++) {
char ch;
sfs_fread(fds[i], &ch, 1);
if (ch != test_str[j]) {
fprintf(stderr, "ERROR: Read wrong byte from %s at %d (%d,%d)\n",
names[i], j, ch, test_str[j]);
error_count++;
break;
}
}
}
/* Now close all of the open file handles.
*/
for (i = 0; i < nopen; i++) {
sfs_fclose(fds[i]);
}
/* Now we try to re-initialize the system.
*/
mksfs(0);
for (i = 0; i < nopen; i++) {
fds[i] = sfs_fopen(names[i]);
if (fds[i] >= 0) {
sfs_fread(fds[i], fixedbuf, sizeof(fixedbuf));
for (j = 0; j < strlen(test_str); j++) {
if (test_str[j] != fixedbuf[j]) {
fprintf(stderr, "ERROR: Wrong byte in %s at %d (%d,%d)\n",
names[i], j, fixedbuf[j], test_str[j]);
error_count++;
break;
}
}
sfs_fclose(fds[i]);
}
}
for (i = 0; i < ncreate; i++) {
sfs_remove(names[i]);
free(names[i]);
names[i] = NULL;
}
//-------- The following part tests sfs_fseek
printf("Tests sfs_fseek\n");
// Prepare a file
char* f_name = rand_name();
int f_id = sfs_fopen(f_name);
buffer = malloc(100);
for(i = 0; i < 10; i++)
{
sfs_fwrite(f_id, "0123456789", 10);
}
// sfs_fwrite shouldn't change read pointer
for(i = 0; i < 10; i++)
{
sfs_fread(f_id, buffer, 10);
if(0 != strncmp(buffer, "0123456789", 10))
{
fprintf(stderr, "ERROR: should read '0123456789'\n");
error_count++;
}
}
// sys_seek changes read pointer
for(i = 0; i < 100; i += 7)
{
sfs_fseek(f_id, i);
sfs_fread(f_id, buffer, 1);
if (buffer[0] - 48 != i % 10) {
fprintf(stderr, "ERROR: postion %d shoud be %c\n", i, i % 10);
error_count++;
}
}
sfs_fseek(f_id, 80);
sfs_fwrite(f_id, "9876543210", 10);
sfs_fseek(f_id, 85);
sfs_fread(f_id, buffer, 10);
if(0 != strncmp(buffer, "4321001234", 10))
{
fprintf(stderr, "ERROR: should read '4321001234'\n");
error_count++;
}
//free(buffer);
fprintf(stderr, "Test program exiting with %d errors\n", error_count);
return (error_count);
}
int main(int argc, char *argv[])
{
NEOERR *err;
HDF *hdf;
int x;
char name[256];
char value[256];
double tstart = 0;
err = hdf_init(&hdf);
DIE_NOT_OK(err);
err = hdf_set_value (hdf, "Beware", "1");
DIE_NOT_OK(err);
err = hdf_set_value (hdf, "Beware.The", "2");
DIE_NOT_OK(err);
err = hdf_set_valuef (hdf, "Beware.The.%s=%d", "Ides", 3);
DIE_NOT_OK(err);
err = hdf_set_value (hdf, "Beware.Off", "4");
DIE_NOT_OK(err);
err = hdf_set_value (hdf, "Beware.The.Ides.Of", "5");
DIE_NOT_OK(err);
err = hdf_set_value (hdf, "Beware.The.Butter", "6");
DIE_NOT_OK(err);
err = hdf_set_attr (hdf, "Beware.The.Butter", "Lang", "en");
DIE_NOT_OK(err);
err = hdf_set_attr (hdf, "Beware.The.Butter", "Lang", "1");
DIE_NOT_OK(err);
err = hdf_set_attr (hdf, "Beware.The.Butter", "Lang", NULL);
DIE_NOT_OK(err);
err = hdf_read_file (hdf, "test.hdf");
DIE_NOT_OK(err);
hdf_dump(hdf, NULL);
x = hdf_get_int_value (hdf, "Beware.The.Ides", 0);
if (x != 3)
{
ne_warn("hdf_get_int_value returned %d, expected 3", x);
return -1;
}
/* test symlinks */
{
const char *v;
err = hdf_set_value(hdf, "Destination.Foo", "bar");
DIE_NOT_OK(err);
err = hdf_set_symlink(hdf, "Symlink.baz", "Destination.Foo");
DIE_NOT_OK(err);
v = hdf_get_value(hdf, "Symlink.baz", "notfound");
if (strcmp(v, "bar")) {
ne_warn("hdf_get_value through symlink returned %s, expected bar", v);
return -1;
}
err = hdf_set_value(hdf, "Symlink.baz", "newvalue");
DIE_NOT_OK(err);
v = hdf_get_value(hdf, "Symlink.baz", "notfound");
if (strcmp(v, "newvalue")) {
ne_warn("hdf_get_value through symlink returned %s, expected newvalue",
v);
return -1;
}
err = hdf_set_value(hdf, "Symlink.baz.too", "newtoo");
DIE_NOT_OK(err);
v = hdf_get_value(hdf, "Symlink.baz.too", "newtoo");
if (strcmp(v, "newtoo")) {
ne_warn("hdf_get_value through symlink returned %s, expected newtoo",
v);
return -1;
}
v = hdf_get_value(hdf, "Destination.Foo.too", "newtoo");
if (strcmp(v, "newtoo")) {
ne_warn("hdf_get_value through symlink returned %s, expected newtoo",
v);
return -1;
}
}
for (x = 0; x < 10000; x++)
{
rand_name(name, sizeof(name));
neo_rand_word(value, sizeof(value));
/* ne_warn("Setting %s = %s", name, value); */
err = hdf_set_value (hdf, name, value);
DIE_NOT_OK(err);
}
tstart = ne_timef();
hdf_sort_obj(hdf, sortByName);
ne_warn("sort took %5.5fs", ne_timef() - tstart);
hdf_dump(hdf, NULL);
hdf_destroy(&hdf);
return 0;
}
/* The main testing program
*/
int
main(int argc, char **argv)
{
int i, j, k;
int chunksize;
char *buffer;
int fds[MAX_FD];
char *names[MAX_FD];
int filesize[MAX_FD];
int error_count = 0;
int tmp;
mksfs(1); /* Initialize the file system. */
/* First we open five files and attempt to write data to them.
*/
for (i = 0; i < 5; i++) {
names[i] = rand_name();
fds[i] = sfs_open(names[i]);
if (fds[i] < 0) {
fprintf(stderr, "ERROR: creating first test file %s\n", names[i]);
error_count++;
}
tmp = sfs_open(names[i]);
if (tmp >= 0 && tmp != fds[i]) {
fprintf(stderr, "ERROR: file %s was opened twice\n", names[i]);
error_count++;
}
filesize[i] = (rand() % (MAX_BYTES-MIN_BYTES)) + MIN_BYTES;
}
for (i = 0; i < 5; i++) {
for (j = i + 1; j < 2; j++) {
if (fds[i] == fds[j]) {
fprintf(stderr, "Warning: the file descriptors probably shouldn't be the same?\n");
}
}
}
printf("Five files created with zero length:\n");
sfs_ls();
printf("\n");
for (i = 0; i < 5; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
for (k = 0; k < chunksize; k++) {
buffer[k] = (char) (j+k);
}
sfs_write(fds[i], buffer, chunksize);
free(buffer);
}
}
for (i = 0; i < 5; i++)
sfs_close(fds[i]);
sfs_ls();
for (i = 0; i < 5; i++)
fds[i] = sfs_open(names[i]);
printf("Reopened the files again.. the read/write pointers should be set to front\n");
for (i = 0; i < 5; i++) {
for (j = 0; j < filesize[i]; j += chunksize) {
if ((filesize[i] - j) < 10) {
chunksize = filesize[i] - j;
}
else {
chunksize = (rand() % (filesize[i] - j)) + 1;
}
if ((buffer = malloc(chunksize)) == NULL) {
fprintf(stderr, "ABORT: Out of memory!\n");
exit(-1);
}
sfs_read(fds[i], buffer, chunksize);
puts(buffer);
for (k = 0; k < chunksize; k++) {
if (buffer[k] != (char)(j+k)) {
fprintf(stderr, "ERROR: data error at offset %d in file %s (%x,%x)\n",
j+k, names[i], buffer[k], (char)(j+k));
error_count++;
break;
}
}
free(buffer);
}
}
fprintf(stderr, "Test program exiting with %d errors\n", error_count);
return (error_count);
}
