Merge branch 'pip-standard-orig-python' into 'master'

The new install version based on classical setup.py

See merge request obitools/obitools3!1

src/.gitignore

@@ -0,0 +1,5 @@
+/CMakeFiles/
+/CMakeCache.txt
+/cmake_install.cmake
+/libcobitools3.dylib
+/Makefile

src/CMakeLists.txt

@@ -0,0 +1,66 @@
+cmake_minimum_required(VERSION 3.12)
+set(CMAKE_POSITION_INDEPENDENT_CODE ON)
+
+SET(PYTHONLIB "po" CACHE STRING "Location of the python site-package directory")
+
+project (cobitools3)
+set(CMAKE_BUILD_TYPE Release)
+
+SET(CMAKE_C_COMPILER gcc)
+
+include_directories(${CMAKE_CURRENT_SOURCE_DIR})
+file(GLOB_RECURSE CSRC "*.c")
+
+add_library(cobitools3 SHARED   obierrno.c
+								obidms_taxonomy.c
+								obiblob_indexer.c
+								obi_lcs.c
+								obidmscolumn_str.c
+								bloom.c
+								build_reference_db.c
+								obidmscolumn_array.c
+								obidmscolumn_idx.c
+								obidmscolumn_bool.c
+								libjson/json_utils.c
+								libjson/cJSON.c
+								obidmscolumn_blob.c
+								dna_seq_indexer.c
+								obi_ecotag.c
+								encode.c
+								obiavl.c
+								sse_banded_LCS_alignment.c
+								kmer_similarity.c
+								obidmscolumn_qual.c
+								obi_clean.c
+								utils.c
+								uint8_indexer.c
+								murmurhash2.c
+								obidmscolumn_char.c
+								obiview.c
+								obidmscolumn_int.c
+								linked_list.c
+								obiblob.c
+								hashtable.c
+								obidmscolumn.c
+								char_str_indexer.c
+								obidmscolumn_float.c
+								upperband.c
+								crc64.c
+								obidmscolumn_seq.c
+								obilittlebigman.c
+								obidmscolumndir.c
+								obidms.c
+								obi_ecopcr.c
+								libecoPCR/libthermo/nnparams.c
+								libecoPCR/ecoapat.c
+								libecoPCR/libapat/libstki.c
+								libecoPCR/libapat/apat_search.c
+								libecoPCR/libapat/apat_parse.c
+								libecoPCR/ecodna.c
+								libecoPCR/ecoMalloc.c
+								libecoPCR/ecoError.c
+								obitypes.c
+								array_indexer.c)
+								
+install(TARGETS cobitools3 DESTINATION ${PYTHONLIB})
+