Major changes : new cython subclasses to handle columns with multiple

elements per line in a more efficient way + now elements_names are
passed as a list + new function to recover only the header of a column

python/obitools3/obidms/_obidmscolumn_int.pyx

@@ -3,7 +3,9 @@
 from .capi.obidmscolumn cimport obi_close_column,\
                                 obi_truncate_and_close_column, \
                                 obi_column_get_obiint_with_elt_name, \
-                                obi_column_set_obiint_with_elt_name
+                                obi_column_get_obiint_with_elt_idx, \
+                                obi_column_set_obiint_with_elt_name, \
+                                obi_column_set_obiint_with_elt_idx
 from .capi.obierrno     cimport obi_errno
 from .capi.obitypes     cimport OBIInt_NA
 
@@ -11,11 +13,42 @@ from obitools3.utils cimport str2bytes
 
 from cpython.int cimport PyInt_FromLong
 
-from ._obidms cimport OBIDMS_column
-
 
 cdef class OBIDMS_column_int(OBIDMS_column):
 
+    cpdef object get_line(self, size_t line_nb):
+        cdef obiint_t value
+        cdef object result
+        value = obi_column_get_obiint_with_elt_idx(self.pointer, line_nb, 0)
+        if obi_errno > 0 :
+            raise IndexError(line_nb)
+        if value == OBIInt_NA :
+            result = None
+        else :
+            result = PyInt_FromLong(value)
+        return result
+
+    cpdef set_line(self, size_t line_nb, object value):
+        raise Exception("Column is read-only")
+    
+    cpdef close(self):
+        if obi_close_column(self.pointer) < 0 :
+            raise Exception("Problem closing a column")
+
+
+cdef class OBIDMS_column_int_writable(OBIDMS_column_int):     
+
+    cpdef set_line(self, size_t line_nb, object value):
+        if obi_column_set_obiint_with_elt_idx(self.pointer, line_nb, 0, <obiint_t> value) < 0:
+            raise Exception("Problem setting a value in a column")
+
+    cpdef close(self):
+        if obi_truncate_and_close_column(self.pointer) < 0 :
+            raise Exception("Problem closing a column")
+
+
+cdef class OBIDMS_column_int_multi_elts(OBIDMS_column_int):
+
     cpdef object get_item(self, size_t line_nb, str element_name):
         cdef obiint_t value
         cdef object result
@@ -28,21 +61,44 @@ cdef class OBIDMS_column_int(OBIDMS_column):
             result = PyInt_FromLong(value)
         return result
     
+    cpdef object get_line(self, size_t line_nb) :
+        cdef obiint_t value
+        cdef object result
+        cdef size_t i
+        cdef bint all_NA
+        result = {}
+        all_NA = True
+        for i in range(self.nb_elements_per_line) :
+            value = obi_column_get_obiint_with_elt_idx(self.pointer, line_nb, i)
+            if obi_errno > 0 :
+                raise IndexError(line_nb)           
+            result[self.elements_names[i]] = PyInt_FromLong(value)
+            if all_NA and (value != OBIInt_NA) :
+                all_NA = False
+        if all_NA :
+            result = None
+        return result
+
     cpdef set_item(self, size_t line_nb, str element_name, obiint_t value):
         raise Exception("Column is read-only")
 
-    cpdef close(self):
-        if obi_close_column(self.pointer) < 0 :
-            raise Exception("Problem closing a column")
-                  
+    cpdef set_line(self, size_t line_nb, object values):
+        raise Exception("Column is read-only")
 
-cdef class OBIDMS_column_int_writable(OBIDMS_column_int):     
+
+cdef class OBIDMS_column_int_multi_elts_writable(OBIDMS_column_int_multi_elts):     
 
     cpdef set_item(self, size_t line_nb, str element_name, obiint_t value):
         if obi_column_set_obiint_with_elt_name(self.pointer, line_nb, str2bytes(element_name), value) < 0:
             raise Exception("Problem setting a value in a column")
+    
+    cpdef set_line(self, size_t line_nb, object values):
+        cdef obiint_t value
+        for element_name in values :
+            value = <obiint_t> values[element_name]
+            self.set_item(line_nb, element_name, value)
 
     cpdef close(self):
         if obi_truncate_and_close_column(self.pointer) < 0 :
             raise Exception("Problem closing a column")
- 
+