{math} [intel/2018b] gap/4.9.3

easybuild/easyconfigs/0/4ti2/4ti2-1.6.9-intel-2018b.eb

@@ -0,0 +1,29 @@
+easyblock = 'ConfigureMake'
+
+name = '4ti2'
+version = '1.6.9'
+
+homepage = 'https://4ti2.github.io/'
+description = """A software package for algebraic, geometric and combinatorial problems on linear spaces"""
+
+toolchain = {'name': 'intel', 'version': '2018b'}
+
+source_urls = ['https://github.com/4ti2/4ti2/archive/']
+sources = ['Release_%s.tar.gz' % '_'.join(version.split('.'))]
+checksums = ['7b1015718102d8cd4dc2de64f69094fdba0bc69a1878ada5960979b171ff89e4']
+
+dependencies = [
+    ('GMP', '6.1.2'),
+    ('GLPK', '4.65'),
+]
+
+builddependencies = [('Autotools', '20180311')]
+
+preconfigopts = './autogen.sh && '
+
+sanity_check_paths = {
+    'files': ['bin/%s' % x for x in ['4ti2gmp', '4ti2int32', '4ti2int64']],
+    'dirs': ['include/4ti2', 'lib', 'share/4ti2']
+}
+
+moduleclass = 'math'

easybuild/easyconfigs/b/Boost/Boost-1.67.0-intel-2018b.eb

@@ -0,0 +1,24 @@
+name = 'Boost'
+version = '1.67.0'
+
+homepage = 'http://www.boost.org/'
+description = """Boost provides free peer-reviewed portable C++ source libraries."""
+
+toolchain = {'name': 'intel', 'version': '2018b'}
+toolchainopts = {'pic': True, 'usempi': True}
+
+source_urls = [SOURCEFORGE_SOURCE]
+sources = ['%%(namelower)s_%s.tar.gz' % '_'.join(version.split('.'))]
+checksums = ['8aa4e330c870ef50a896634c931adf468b21f8a69b77007e45c444151229f665']
+
+dependencies = [
+    ('bzip2', '1.0.6'),
+    ('zlib', '1.2.11'),
+]
+
+configopts = '--without-libraries=python'
+
+# also build boost_mpi
+boost_mpi = True
+
+moduleclass = 'devel'

easybuild/easyconfigs/g/gap/gap-4.9.3-intel-2018b.eb

@@ -0,0 +1,45 @@
+easyblock = 'ConfigureMake'
+
+name = 'gap'
+version = '4.9.3'
+
+homepage = 'https://www.gap-system.org'
+description = """GAP is a system for computational discrete algebra,
+with particular emphasis on Computational Group Theory."""
+
+toolchain = {'name': 'intel', 'version': '2018b'}
+
+source_urls = ['https://www.gap-system.org/pub/gap/gap-%(version_major_minor)s/tar.gz/']
+sources = [SOURCE_TAR_GZ]
+patches = ['%(name)s-%(version)s-use-EB-deps.patch']
+checksums = [
+    'e502941e52352285e87faaf11e7f0e810eab8e38849d869fc6b9714d6cf7fe7c',  # gap-4.9.3.tar.gz
+    '997e49f35e5c6df43fdc52ac5d856e906790289108de7fbc22413eb8544aa30c',  # gap-4.9.3-use-EB-deps.patch
+]
+
+unpack_options = '--strip-components=1'
+
+dependencies = [
+    ('GMP', '6.1.2'),
+    ('libreadline', '7.0'),
+    ('4ti2', '1.6.9'),
+    ('Normaliz', '3.6.3'),
+    ('lrslib', '6.2'),
+]
+
+# It doesn't have a working make install and hardcodes
+# the build path
+buildininstalldir = True
+
+# This tries to install all of the GAP packages. If one fails because
+# of missing dependencies, it's skipped automatically
+preinstallopts = 'cd pkg && ../bin/BuildPackages.sh && cd .. #'
+
+postinstallcmds = ["cd bin && ln -s gap.sh gap && cd -"]
+
+sanity_check_paths = {
+    'files': ['bin/gap.sh', 'gap', 'gac'],
+    'dirs': ['pkg']
+}
+
+moduleclass = 'math'

easybuild/easyconfigs/g/gap/gap-4.9.3-use-EB-deps.patch

@@ -0,0 +1,14 @@
+# Don't let gap build it's own Normaliz, use the EB version instead
+# wpoely86@gmail.com
+diff -ur 4.9.3-intel-2018b.orig/pkg/NormalizInterface-1.0.2/build-normaliz.sh 4.9.3-intel-2018b/pkg/NormalizInterface-1.0.2/build-normaliz.sh
+--- 4.9.3-intel-2018b.orig/pkg/NormalizInterface-1.0.2/build-normaliz.sh	2018-10-16 15:26:01.350316915 +0200
++++ 4.9.3-intel-2018b/pkg/NormalizInterface-1.0.2/build-normaliz.sh	2018-10-16 15:24:30.353651528 +0200
+@@ -12,6 +12,8 @@
+ #  make
+ #
+
++exit 0
++
+ if [ "$#" -ge 1 ]; then
+     GAPDIR=$1
+     shift

easybuild/easyconfigs/l/lrslib/lrslib-6.2-fix-plrs.patch

@@ -0,0 +1,135 @@
+# Fix incorrect compare to NULL pointer. It will automically cast to bool
+# wpoely86@gmail.com
+diff -ur lrslib-062.orig/plrs.cpp lrslib-062/plrs.cpp
+--- lrslib-062.orig/plrs.cpp	2016-05-27 11:04:14.000000000 +0200
++++ lrslib-062/plrs.cpp	2018-10-17 11:56:44.344749250 +0200
+@@ -189,12 +189,12 @@
+ 	while(consume_list){
+
+ 		if(consume_list->type == "vertex"){
+-			if (OUTSTREAM == NULL)
++			if (!OUTSTREAM)
+ 			  printf("%s\n",consume_list->data.c_str()); 
+ 			else  OUTSTREAM <<consume_list->data<<endl;
+
+ 		}else if(consume_list->type == "ray"){
+-			if (OUTSTREAM == NULL)
++			if (!OUTSTREAM)
+ 			  printf("%s\n",consume_list->data.c_str());
+ 			else  OUTSTREAM <<consume_list->data<<endl;
+
+@@ -204,13 +204,13 @@
+ 				//Note that we will not be piping initial cobasis to output
+ 				processCobasis(consume_list->data);
+ 			}else{
+-				if (OUTSTREAM == NULL)
++				if (!OUTSTREAM)
+ 				  printf("%s\n",consume_list->data.c_str()); 
+ 				else  OUTSTREAM <<consume_list->data<<endl;
+ 			}
+ 		}else if(consume_list->type =="V cobasis"){
+ 			if(!initializing){
+-				if (OUTSTREAM == NULL)
++				if (!OUTSTREAM)
+ 				  printf("%s\n",consume_list->data.c_str());
+ 				else  OUTSTREAM <<consume_list->data<<endl;
+ 			}
+@@ -243,20 +243,20 @@
+ 		}else if(consume_list->type == "options warning"){
+ 			//Only pipe warnings if initializing otherwise they are displayed multiple times
+ 			if(initializing){
+-				if (OUTSTREAM == NULL)
++				if (!OUTSTREAM)
+ 				  printf("%s\n", consume_list->data.c_str());
+ 				else OUTSTREAM <<consume_list->data<<endl;
+ 			}
+ 		}else if(consume_list->type == "header"){
+ 			//Only pipe headers if initializing otherwise they are displayed multiple times
+ 			if(initializing){
+-				if (OUTSTREAM == NULL)
++				if (!OUTSTREAM)
+ 				  printf("%s\n", consume_list->data.c_str());
+ 				else  OUTSTREAM <<consume_list->data<<endl;
+ 			}
+ 		}else if(consume_list->type == "debug"){
+ 			//Print debug output if it's produced
+-			if (OUTSTREAM == NULL)
++			if (!OUTSTREAM)
+ 			 printf("%s\n", consume_list->data.c_str());
+ 			else  OUTSTREAM << consume_list->data<<endl;
+ 			}
+@@ -292,7 +292,7 @@
+
+ 	printf("*Max depth of %d to initialize starting cobasis list\n",
+ 		INITDEPTH);
+-        if(OUTSTREAM != NULL)
++        if(OUTSTREAM)
+ 	    OUTSTREAM <<"*Max depth of "<<INITDEPTH<<" to initialize starting cobasis list"<<endl;
+
+ 	//Copy contents of ine file to temporary file	
+@@ -303,13 +303,13 @@
+         {
+                 init_temp_file<<"estimates "<<ESTIMATES<<endl;
+ 		printf("*Estimates %d\n",ESTIMATES);
+-                if(OUTSTREAM != NULL)
++                if(OUTSTREAM)
+ 	              OUTSTREAM <<"*Estimates "<<ESTIMATES<<endl;
+                 if (SUBTREESIZE<1)
+                        SUBTREESIZE=1000;
+ 	        printf("*Subtreesize %d\n",SUBTREESIZE);
+                 init_temp_file<<"subtreesize "<<SUBTREESIZE<<endl;
+-                if(OUTSTREAM != NULL)
++                if(OUTSTREAM)
+ 	               OUTSTREAM <<"*Subtreesize "<<SUBTREESIZE<<endl;
+         }
+ 	if (!ESTIMATES || PLRS_DEBUG)
+@@ -416,7 +416,7 @@
+ 		printf("*Output written to: %s\n",outputfile.c_str());
+ 	}
+
+-        if(OUTSTREAM != NULL)
++        if(OUTSTREAM)
+             {
+ 	     OUTSTREAM <<"*plrs:"<<TITLE<<VERSION<<"("<<ARITH<<")"<<MAXTHREADS<<" processes"<<endl<<AUTHOR<<endl;
+ 	     OUTSTREAM <<"*Input taken from "<<INPUTFILE<<endl;
+@@ -472,11 +472,11 @@
+ 	    consumer_thread.join();
+        }   
+
+-	if (OUTSTREAM == NULL)
++	if (!OUTSTREAM)
+ 		printf("end\n");
+ 	else
+ 		OUTSTREAM <<"end"<<endl;;
+-        if(OUTSTREAM != NULL)
++        if(OUTSTREAM)
+            {
+ 	    OUTSTREAM<<"*Finished initializing cobasis list with "<<cobasislistsize<<" starting cobases"<<endl;
+ 	    OUTSTREAM <<"*Starting "<<MAXTHREADS<<" producer thread(s) and 1 consumer thread"<<endl;
+@@ -484,22 +484,22 @@
+ 	if(FACETS > 0){
+                 printf("%s\n", prat("*Volume=",Vnum,Vden).c_str());
+ 		printf("*Totals: facets=%ld bases=%ld\n",FACETS,BASIS);
+-                if (OUTSTREAM != NULL) {
++                if (OUTSTREAM) {
+                     OUTSTREAM <<prat("*Volume=",Vnum,Vden) << endl ;
+                     OUTSTREAM <<"*Totals: facets="<<FACETS<<" bases="<<BASIS<<endl;
+                 }
+ 	}else{
+ 		printf("*Totals: vertices=%ld rays=%ld bases=%ld integer-vertices=%ld\n",VERTICES,RAYS,BASIS,INTVERTICES);
+-                if (OUTSTREAM != NULL)
++                if (OUTSTREAM)
+                     OUTSTREAM<<"*Totals: vertices="<<VERTICES<<" rays="<<RAYS<<" bases="<<BASIS<< " integer-vertices="<<INTVERTICES<<endl;
+ 	}
+
+-       if(OUTSTREAM != NULL)
++       if(OUTSTREAM)
+             OUTSTREAM<< "*Phase 1 time: "<< phase1time <<
+                         " seconds"<<endl;
+   	gettimeofday(&end, NULL); 
+ 	printf("*Elapsed time: %ld seconds\n", end.tv_sec  - start.tv_sec);
+-        if (OUTSTREAM != NULL)
++        if (OUTSTREAM)
+            {
+ 	         OUTSTREAM <<"*Elapsed time: "<<end.tv_sec  - start.tv_sec<<" seconds."<<endl;
+            }

easybuild/easyconfigs/l/lrslib/lrslib-6.2-intel-2018b.eb

@@ -0,0 +1,38 @@
+easyblock = 'ConfigureMake'
+
+name = 'lrslib'
+version = '6.2'
+
+homepage = 'http://cgm.cs.mcgill.ca/~avis/C/lrs.html'
+description = """lrslib is a self-contained ANSI C implementation of the
+reverse search algorithm for vertex enumeration/convex hull problems"""
+
+toolchain = {'name': 'intel', 'version': '2018b'}
+
+source_urls = ['http://cgm.cs.mcgill.ca/~avis/C/lrslib/archive/']
+sources = ['%%(name)s-0%s.tar.gz' % version.replace('.', '')]
+patches = [
+    '%(name)s-%(version)s-use-EB-values.patch',
+    '%(name)s-%(version)s-fix-plrs.patch',
+]
+checksums = [
+    'adf92f9c7e70c001340b9c28f414208d49c581df46b550f56ab9a360348e4f09',  # lrslib-062.tar.gz
+    '00ad20f564a71af449d5bf720b9370522cc8189ec7b15a2e20688f6734c812a0',  # lrslib-6.2-use-EB-values.patch
+    '6f49ed9f6219e8bf9448799c5be5cf1752447f3cbd2c7a07db44bd85d48f3a62',  # lrslib-6.2-fix-plrs.patch
+]
+
+dependencies = [
+    ('Boost', '1.67.0'),
+    ('GMP', '6.1.2'),
+]
+
+skipsteps = ['configure']
+buildopts = 'all plrs mplrs'
+installopts = 'prefix=%(installdir)s'
+
+sanity_check_paths = {
+    'files': ['bin/%s' % x for x in ['lrs', 'lrs1', '2nash', 'plrs', 'mplrs']],
+    'dirs': ['include', 'lib']
+}
+
+moduleclass = 'math'