obitools/obitools3
2
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases 66 Wiki Activity

Handling of single char columns

Browse Source
This commit is contained in:
Celine Mercier
2015-09-18 15:49:15 +02:00
parent 34a3717fb9
commit 7d7dbb1bf9
5 changed files with 11 additions and 12 deletions
Download Patch File Download Diff File Expand all files Collapse all files

2
python/obitools3/obidms/obidmscolumn/capidmscolumn.pxd
View File

@ -12,7 +12,7 @@ cdef extern from "obitypes.h" nogil:
ctypedef OBIBool obibool_t
ctypedef int32_t obiint_t
ctypedef double obifloat_t
ctypedef bytes obichar_t
ctypedef char obichar_t
ctypedef size_t obiidx_t
char* name_data_type(int data_type)

4
python/obitools3/obidms/obidmscolumn/obidmscolumn_char/capidmscolumn_char.pxd
View File

@ -3,5 +3,5 @@ from obitools3.obidms.obidmscolumn.capidmscolumn cimport *
cdef extern from "obidmscolumn_char.h" nogil:
int obi_column_set_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name, obichar_t* value)
obichar_t* obi_column_get_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name)
int obi_column_set_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name, obichar_t value)
obichar_t obi_column_get_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name)

12
python/obitools3/obidms/obidmscolumn/obidmscolumn_char/capidmscolumn_char.pyx
View File

@ -6,10 +6,10 @@ from .capidmscolumn_char cimport *
cdef class OBIDMS_column_char(OBIDMS_column) :
def get_item(self, line_nb, element_name):
value = (obi_column_get_obichar_with_elt_name(self.pointer, line_nb, element_name.encode('utf-8'))).decode(encoding='utf-8')[:1]
cdef char value = obi_column_get_obichar_with_elt_name(self.pointer, line_nb, element_name.encode('utf-8'))
if obi_errno > 0 :
raise IndexError(line_nb, element_name)
return value
return <bytes> value
cdef class OBIDMS_column_char_read(OBIDMS_column_char) :
@ -17,19 +17,17 @@ cdef class OBIDMS_column_char_read(OBIDMS_column_char) :
def set_item(self, line_nb, element_name, value):
raise Exception('Column is read-only')
def close(self):
cpdef close(self):
if obi_close_column(self.pointer) < 0 :
raise Exception("Problem closing a column")
cdef class OBIDMS_column_char_writable(OBIDMS_column_char) :
def set_item(self, line_nb, element_name, value):
return obi_column_set_obichar_with_elt_name(self.pointer, line_nb, element_name.encode('utf-8'), value.encode('utf-8'))
def set_item(self, line_nb, element_name, bytes value):
return obi_column_set_obichar_with_elt_name(self.pointer, line_nb, element_name.encode('utf-8'), value[0])
def close(self):
if obi_truncate_and_close_column(self.pointer) < 0 :
raise Exception("Problem closing a column")

1
src/obidmscolumn_char.c
View File

@ -65,6 +65,7 @@ obichar_t obi_column_get_obichar_with_elt_idx(OBIDMS_column_p column, size_t lin
obidebug(1, "\nError trying to get a value that is beyond the current number of lines used");
return OBIChar_NA;
}
return *(((obichar_t*) (column->data)) + (line_nb * ((column->header)->nb_elements_per_line)) + element_idx);
}

4
src/obidmscolumn_char.h
View File

@ -78,7 +78,7 @@ obichar_t* obi_column_get_obichar_with_elt_idx(OBIDMS_column_p column, size_t li
* @since August 2015
* @author Celine Mercier (celine.mercier@metabarcoding.org)
*/
int obi_column_set_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name, obichar_t* value);
int obi_column_set_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name, obichar_t value);
/**
@ -97,5 +97,5 @@ int obi_column_set_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb,
* @since August 2015
* @author Celine Mercier (celine.mercier@metabarcoding.org)
*/
obichar_t* obi_column_get_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name);
obichar_t obi_column_get_obichar_with_elt_name(OBIDMS_column_p column, size_t line_nb, char* element_name);