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TurakhiaLab · Jul 23, 2024 · f0d2019 · f0d2019
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diff --git a/baseline/software/build/Makefile b/baseline/software/build/Makefile
diff --git a/baseline/software/build/banded_local_linear b/baseline/software/build/banded_local_linear
diff --git a/baseline/software/build/global_affine b/baseline/software/build/global_affine
diff --git a/baseline/software/build/global_linear b/baseline/software/build/global_linear
diff --git a/baseline/software/build/local_affine b/baseline/software/build/local_affine
diff --git a/baseline/software/build/local_linear b/baseline/software/build/local_linear
diff --git a/baseline/software/build/overlap_linear b/baseline/software/build/overlap_linear
diff --git a/baseline/software/build/semi_global_linear b/baseline/software/build/semi_global_linear
diff --git a/baseline/software/minimap2 b/baseline/software/minimap2
diff --git a/baseline/software/run_baseline.sh b/baseline/software/run_baseline.sh
@@ -0,0 +1,7 @@
+#!/usr/bin/bash
+
+# Running SeqAn3
+
+# Running minimap
+
+
diff --git a/baseline/software/seqan3 b/baseline/software/seqan3
diff --git a/baseline/software/source/CMakeLists.txt b/baseline/software/source/CMakeLists.txt
@@ -0,0 +1,26 @@
+cmake_minimum_required (VERSION 3.5)
+project (seqan3_tutorial CXX)
+
+# add seqan3 to search path
+list (APPEND CMAKE_PREFIX_PATH "${CMAKE_CURRENT_SOURCE_DIR}/../seqan3/build_system")
+
+# require seqan3 with a version between >=3.0.0 and <4.0.0
+find_package (seqan3 3.0 REQUIRED)
+
+# build app with seqan3
+# add_executable (hello_world hello_world.cpp)
+# target_link_libraries (hello_world seqan3::seqan3)
+add_executable (global_affine global_affine.cpp)
+target_link_libraries (global_affine seqan3::seqan3)
+add_executable (global_linear global_linear.cpp)
+target_link_libraries (global_linear seqan3::seqan3)
+add_executable (local_affine local_affine.cpp)
+target_link_libraries (local_affine seqan3::seqan3)
+add_executable (local_linear local_linear.cpp)
+target_link_libraries (local_linear seqan3::seqan3)
+add_executable (banded_local_linear banded_local_linear.cpp)
+target_link_libraries (banded_local_linear seqan3::seqan3)
+add_executable (semi_global_linear semi_global_linear.cpp)
+target_link_libraries (semi_global_linear seqan3::seqan3)
+add_executable (overlap_linear overlap_linear.cpp)
+target_link_libraries (overlap_linear seqan3::seqan3)
diff --git a/baseline/software/source/banded_local_linear.cpp b/baseline/software/source/banded_local_linear.cpp
diff --git a/baseline/software/source/global_affine.cpp b/baseline/software/source/global_affine.cpp
diff --git a/baseline/software/source/global_linear.cpp b/baseline/software/source/global_linear.cpp
diff --git a/baseline/software/source/hello_world.cpp b/baseline/software/source/hello_world.cpp
diff --git a/baseline/software/source/local_affine.cpp b/baseline/software/source/local_affine.cpp
diff --git a/baseline/software/source/local_linear.cpp b/baseline/software/source/local_linear.cpp
diff --git a/baseline/software/source/overlap_linear.cpp b/baseline/software/source/overlap_linear.cpp
diff --git a/baseline/software/source/semi_global_linear.cpp b/baseline/software/source/semi_global_linear.cpp