Ig248 fix header (#31)

* Add missing functions in header file. Before this change, calling `python -c "import ncls"` after build caused error `.../ncls.cpython-37m-x86_64-linux-gnu.so: undefined symbol: find_suboverlap_start` * Update changelog and pxd * Bump version Co-authored-by: Igor Gotlibovych <igor.gotlibovych@gmail.com>
pyranges · Feb 20, 2020 · 2324da8 · 2324da8
1 parent 6cca249
commit 2324da8
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Showing 6 changed files with 8 additions and 2 deletions.
diff --git a/CHANGELOG b/CHANGELOG
@@ -1,3 +1,6 @@
+# 0.0.52 (20.02.20)
+- fix missing functions in headers (thanks Igor Gotlibovych)
+
 # 0.0.51 (03.12.19)
 - make setup.py installable distutils if cython isn't installed
 

diff --git a/ncls/src/cncls.pxd b/ncls/src/cncls.pxd
@@ -53,8 +53,8 @@ cdef extern from "ncls/src/intervaldb.h":
         int len
 
     int find_overlap_start(int64_t start, int64_t end, IntervalMap im[], int n)
+    int find_suboverlap_start(int64_t start, int64_t end, int isub, IntervalMap im[], SublistHeader subheader[])
     int imstart_qsort_cmp(void *void_a,void *void_b)
-    # int target_qsort_cmp(void *void_a,void *void_b)
     IntervalMap *read_intervals(int n,FILE *ifile)
     SublistHeader *build_nested_list(IntervalMap im[],int n,int *p_n,int *p_nlists)
     SublistHeader *build_nested_list_inplace(IntervalMap im[],int n,int *p_n,int *p_nlists)

diff --git a/ncls/src/cncls32.pxd b/ncls/src/cncls32.pxd
@@ -41,6 +41,7 @@ cdef extern from "ncls/src/intervaldb32.h":
         int len
 
     int find_overlap_start(int32_t start, int32_t end, IntervalMap im[], int n)
+    int find_suboverlap_start(int32_t start, int32_t end, int isub, IntervalMap im[], SublistHeader subheader[])
     int imstart_qsort_cmp(void *void_a,void *void_b)
     # int target_qsort_cmp(void *void_a,void *void_b)
     SublistHeader *build_nested_list(IntervalMap im[],int n,int *p_n,int *p_nlists)

diff --git a/ncls/src/intervaldb.h b/ncls/src/intervaldb.h
@@ -78,6 +78,7 @@ typedef struct {
 extern int *alloc_array(int n);
 
 extern int64_t find_overlap_start(int64_t start,int64_t end,IntervalMap im[],int n);
+extern int find_suboverlap_start(int start,int end,int isub,IntervalMap im[],SublistHeader subheader[]);
 extern int imstart_qsort_cmp(const void *void_a,const void *void_b);
 extern int target_qsort_cmp(const void *void_a,const void *void_b);
 extern IntervalMap *read_intervals(int n,FILE *ifile);

diff --git a/ncls/src/intervaldb32.h b/ncls/src/intervaldb32.h
@@ -38,6 +38,7 @@ typedef struct IntervalIterator_S {
 extern int *alloc_array(int n);
 
 extern int find_overlap_start(int start,int end,IntervalMap im[],int n);
+extern int find_suboverlap_start(int start,int end,int isub,IntervalMap im[],SublistHeader subheader[]);
 extern int imstart_qsort_cmp(const void *void_a,const void *void_b);
 extern int target_qsort_cmp(const void *void_a,const void *void_b);
 extern SublistHeader *build_nested_list(IntervalMap im[],int n,

diff --git a/ncls/version.py b/ncls/version.py
@@ -1 +1 @@
-__version__ = "0.0.51"
+__version__ = "0.0.52"