debian/patches/modify_cmake.patch

+Description: modify and touch-up cmake file to build
+ Modify cmake so debian-packaged libraries are used instead and prevent SHA-1 fetching from repository (use hard-code)
+Author: Shayan Doust <hello@shayandoust.me>
+Last-Update: 2019-09-23
+---
+
+Index: bcalm/CMakeLists.txt
+===================================================================
+--- bcalm.orig/CMakeLists.txt	2019-09-23 06:21:21.709546638 +0100
++++ bcalm/CMakeLists.txt	2019-09-23 06:21:21.705546591 +0100
+@@ -5,12 +5,12 @@
+ ################################################################################
+ # Shortcuts
+ ################################################################################
+-SET (GATB_CORE_HOME  ${PROJECT_SOURCE_DIR}/gatb-core)
++#SET (GATB_CORE_HOME  ${PROJECT_SOURCE_DIR}/gatb-core)
+ 
+ ################################################################################
+ # Define cmake modules directory
+ ################################################################################
+-FOREACH (path "${CMAKE_CURRENT_SOURCE_DIR}/cmake" "${GATB_CORE_HOME}/gatb-core/cmake")
++FOREACH (path "${CMAKE_CURRENT_SOURCE_DIR}/cmake")
+     IF (EXISTS "${path}")
+         SET (CMAKE_MODULE_PATH  "${CMAKE_MODULE_PATH}" "${path}")
+     ENDIF()
+@@ -19,13 +19,15 @@
+ #############################
+ # getting git version
+ #from http://stackoverflow.com/questions/1435953/how-can-i-pass-git-sha1-to-compiler-as-definition-using-cmake
+-exec_program(
+-    "git"
+-    ${CMAKE_CURRENT_SOURCE_DIR}
+-    ARGS "rev-parse --short HEAD"
+-    OUTPUT_VARIABLE VERSION_SHA1 )
++#exec_program(
++#    "git"
++#    ${CMAKE_CURRENT_SOURCE_DIR}
++#    ARGS "rev-parse --short HEAD"
++#    OUTPUT_VARIABLE VERSION_SHA1 )
++#
+ 
+-add_definitions( -DGIT_SHA1="${VERSION_SHA1}" )
++# NEEDS CHANGING PER UPSTREAM CHANGE
++add_definitions( -DGIT_SHA1="ed86d2c")
+ 
+ 
+ ################################################################################
+@@ -39,7 +41,10 @@
+ 
+ 
+ # GATB CORE
+-include (GatbCore)
++#include (GatbCore)
++include(GNUInstallDirs)
++
++link_directories(/usr/${CMAKE_INSTALL_LIBDIR}/hdf5/serial)
+ 
+ ################################################################################
+ #  TOOLS
+@@ -70,7 +75,7 @@
+ include_directories (${PROGRAM_SOURCE_DIR})
+ file (GLOB_RECURSE  ProjectFiles  ${PROGRAM_SOURCE_DIR}/*.cpp)
+ add_executable(${program} ${ProjectFiles})
+-target_link_libraries(${program} ${gatb-core-libraries})
++target_link_libraries(${program} gatbcore hdf5 z)
+ 
+ ################################################################################
+ # DELIVERY

debian/patches/series

+modify_cmake.patch