From: Benjamin Auder Date: Sat, 18 Mar 2017 02:37:51 +0000 (+0100) Subject: Add test/README: shell file self-documented X-Git-Url: https://git.auder.net/doc/html/vendor/css/current/mini-custom.min.css?a=commitdiff_plain;h=3f3ed99c0d4a42cf7ba87144cb2c6967c9c2fdab;p=valse.git Add test/README: shell file self-documented --- diff --git a/.gitignore b/.gitignore index 3a96875..d52ee00 100644 --- a/.gitignore +++ b/.gitignore @@ -5,6 +5,7 @@ #ignore temporary files *~ *.swp +*.Rout #ignore R session files + RStudio files .Rhistory diff --git a/pkg/DESCRIPTION b/pkg/DESCRIPTION index 5a8bc18..d3841a7 100644 --- a/pkg/DESCRIPTION +++ b/pkg/DESCRIPTION @@ -28,4 +28,4 @@ Suggests: URL: http://git.auder.net/?p=valse.git License: MIT + file LICENSE VignetteBuilder: knitr -RoxygenNote: 5.0.1 +RoxygenNote: 6.0.1 diff --git a/test/Makefile b/test/Makefile index 26d9bc6..0fa1189 100644 --- a/test/Makefile +++ b/test/Makefile @@ -1,11 +1,11 @@ CC = gcc CFLAGS = -g -std=gnu99 -Wno-implicit-function-declaration -LDFLAGS = -lm -lgsl -lcblas -lgomp +LDFLAGS = -lm -lgsl -lcblas TEST_LDFLAGS = -L. libvalse_core.so LIB = libvalse_core.so -LIB_SRC = $(wildcard ../sources/*.c) +LIB_SRC = $(wildcard ../pkg/src/sources/*.c) LIB_OBJ = $(LIB_SRC:.c=.o) -INCLUDES = -I../sources +INCLUDES = -I../pkg/src/sources TESTS = test.EMGLLF test.EMGrank test.constructionModelesLassoMLE test.EMGrank\ test.constructionModelesLassoRank test.selectionTotale @@ -33,7 +33,7 @@ test.selectionTotale: $(LIB) test.selectionTotale.o test_utils.o $(CC) -fPIC -o $@ -c $< $(CFLAGS) $(INCLUDES) clean: - rm -f *.o ../sources/*.o ../adapters/*.o + rm -f *.o ../pkg/src/sources/*.o ../pkg/src/adapters/*.o cclean: clean rm -f *.so $(TESTS) diff --git a/test/README b/test/README new file mode 100644 index 0000000..32fcb6d --- /dev/null +++ b/test/README @@ -0,0 +1,30 @@ +#!/bin/sh + +#Testing procedure for EMGLLF (inside this folder): + +#0) Install current version of the package + # Should be library(roxygen2);roxygenize('.'), but roxygen2 6.0.1 bug + # ==> temporary workaround with devtools + document() + echo "setwd('../pkg');library(devtools);document()" | R --slave + R CMD INSTALL ../pkg + +#1) Generate data using R versions of EMGLLF/EMGrank (slow, but trusted) + cd generate_test_data/ + echo "source('generateRunSaveTest_EMGLLF.R');\ + # I'm happy with default values - feel free to give args + generateRunSaveTest_EMGLLF() "\ + | R --slave + +#2) Compile test C code + # Next line might be required sometimes, to destroy all .o and .so + make cclean + # Next line compile the test into an executable named "test.EMGLLF" + make test.EMGLLF + +#3) Run it! + # Fingers crossed, hoping everything is alright + ./test.EMGLLF + # Ask valgrind (generally better idea ;) ) + valgrind ./test.EMGLLF + +#For EMGrank: same procedure, just change EMGLLF to EMGrank everwhere.