-rw-r--r-- | src/aggregator.c | 10 | ||||
-rw-r--r-- | src/assign/assign_protein_type.c | 24 | ||||
-rw-r--r-- | src/error/check_h5_error.c | 2 | ||||
-rw-r--r-- | src/error/check_h5_error.h | 2 | ||||
-rw-r--r-- | src/load/load_influenza_aa_dat.c | 12 | ||||
-rw-r--r-- | src/load/load_influenza_faa.c | 12 | ||||
-rw-r--r-- | src/updator.c | 4 |
7 files changed, 35 insertions, 31 deletions
diff --git a/src/assign/assign_protein_type.c b/src/assign/assign_protein_type.c index 1df4c8d..065880f 100644 --- a/src/assign/assign_protein_type.c +++ b/src/assign/assign_protein_type.c @@ -19,12 +19,12 @@ /* * BLAST database containing all of the influenza protein sequences. */ -#define SEQDB "/home/don/exp004/influenzadb/influenzadb" +#define SEQDB "/u/ac/dpellegr/Documents/exp004/influenzadb/influenzadb" /* * BLAST reference database of prototypical protein types. */ -#define REFDB "/home/don/exp004/influenzadb/proteinnames" +#define REFDB "/u/ac/dpellegr/Documents/exp004/influenzadb/proteinnames" #define BUFFER_LEN 50 @@ -68,7 +68,7 @@ assign_protein_type (hid_t file_id) herr_t status = H5TBget_table_info (file_id, "influenza.faa", &faa_nfields, &faa_nrecords); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); sequence_data *faa_buf = malloc (sizeof (sequence_data) * faa_nrecords); @@ -81,7 +81,7 @@ assign_protein_type (hid_t file_id) status = H5TBread_table (file_id, "influenza.faa", faa_size, faa_offset, faa_sizes, faa_buf); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); /* * Allocate memory for the new table. @@ -115,7 +115,7 @@ assign_protein_type (hid_t file_id) status = H5TBget_table_info (file_id, "gi_type_data", &gi_nfields, &gi_nrecords); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); printf (" Using gi_type_data cache of %i records.\n", (int) gi_nrecords); @@ -125,11 +125,11 @@ assign_protein_type (hid_t file_id) status = H5TBread_table (file_id, "gi_type_data", gi_size, gi_offset, gi_sizes, old_buf); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); status = H5TBdelete_record (file_id, "gi_type_data", 0, gi_nrecords); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); } @@ -155,7 +155,7 @@ assign_protein_type (hid_t file_id) gi_offset, gi_field_type, chunk_size, fill_data, compress, NULL); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); } @@ -295,11 +295,11 @@ assign_protein_type (hid_t file_id) gi_size, gi_offset, gi_sizes, &new_buf[i - 1000]); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); status = H5Fflush (file_id, H5F_SCOPE_GLOBAL); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); written = i; @@ -326,11 +326,11 @@ assign_protein_type (hid_t file_id) } if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); status = H5Fflush (file_id, H5F_SCOPE_GLOBAL); if (status < 0) - check_h5_error (status, __FILE__, __LINE__); + check_h5_error (__FILE__, __LINE__); free (faa_buf); free (old_buf); |