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gnu: Add symmetrica.

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* gnu/packages/algebra.scm (symmetrica): New variable.
* gnu/packages/patches/symmetrica-bruch.patch:
* gnu/packages/patches/symmetrica-int32.patch:
* gnu/packages/patches/symmetrica-return_values.patch:
* gnu/packages/patches/symmetrica-sort_sum_rename.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add patches.
This commit is contained in:
Nicolas Goaziou 2019-06-19 07:57:57 +02:00
parent a42cb6f1f1
commit 75a73bb024
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GPG key ID: DA00B4F048E92F2D
6 changed files with 494 additions and 1 deletions
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6
gnu/local.mk
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@ -1282,6 +1282,7 @@ dist_patch_DATA = \
%D%/packages/patches/sssd-curl-compat.patch \
%D%/packages/patches/steghide-fixes.patch \
%D%/packages/patches/streamlink-update-test.patch \
%D%/packages/patches/stumpwm-fix-broken-read-one-line.patch \
%D%/packages/patches/superlu-dist-awpm-grid.patch \
%D%/packages/patches/superlu-dist-fix-mpi-deprecations.patch \
%D%/packages/patches/superlu-dist-scotchmetis.patch \
@ -1290,7 +1291,10 @@ dist_patch_DATA = \
%D%/packages/patches/swig-guile-gc.patch \
%D%/packages/patches/swish-e-search.patch \
%D%/packages/patches/swish-e-format-security.patch \
%D%/packages/patches/stumpwm-fix-broken-read-one-line.patch \
%D%/packages/patches/symmetrica-bruch.patch \
%D%/packages/patches/symmetrica-int32.patch \
%D%/packages/patches/symmetrica-return_values.patch \
%D%/packages/patches/symmetrica-sort_sum_rename.patch \
%D%/packages/patches/t1lib-CVE-2010-2642.patch \
%D%/packages/patches/t1lib-CVE-2011-0764.patch \
%D%/packages/patches/t1lib-CVE-2011-1552+.patch \

60
gnu/packages/algebra.scm
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@ -1315,3 +1315,63 @@ multiplication algorithm.")
a given height bound on a hyperelliptic curve in a very efficient way,
by using an optimized quadratic sieve algorithm.")
(license license:gpl2+)))
(define-public symmetrica
(package
(name "symmetrica")
(version "2.0")
(source (origin
(method url-fetch/tarbomb)
(uri (let ((v (string-join (string-split version #\.) "_")))
(string-append "http://www.algorithm.uni-bayreuth.de/"
"en/research/SYMMETRICA/"
"SYM" v "_tar.gz")))
(sha256
(base32
"1qhfrbd5ybb0sinl9pad64rscr08qvlfzrzmi4p4hk61xn6phlmz"))
;; Taken from <https://git.sagemath.org/sage.git/plain/build/pkgs/symmetrica/patches/>
(patches (search-patches "symmetrica-bruch.patch"
"symmetrica-int32.patch"
"symmetrica-return_values.patch"
"symmetrica-sort_sum_rename.patch"))))
(build-system gnu-build-system)
(arguments
`(#:tests? #f ;no test
#:phases
(modify-phases %standard-phases
(add-after 'unpack 'fix-makefile
(lambda _
(substitute* "makefile"
(("cc -c") "gcc -c"))
#t))
(add-after 'fix-makefile 'turn-off-banner
(lambda _
(substitute* "de.c"
(("(INT no_banner = )FALSE" _ pre) (string-append pre "TRUE")))
#t))
(delete 'configure) ;no configure script
(replace 'install ;no install target
(lambda* (#:key outputs #:allow-other-keys)
(let* ((out (assoc-ref outputs "out"))
(lib (string-append out "/lib"))
(inc (string-append out "/include/symmetrica"))
(doc (string-append out "/share/doc/symmetrica-" ,version))
(static "libsymmetrica.a"))
;; Build static library.
(apply invoke "ar" "crs" static (find-files "." "\\.o$"))
(invoke "ranlib" static)
;; Install static library and headers.
(for-each (lambda (f) (install-file f inc))
(find-files "." "\\.h$"))
(install-file "libsymmetrica.a" lib)
;; Install documentation.
(for-each (lambda (f) (install-file f doc))
(find-files "." "\\.doc$"))
#t))))))
(home-page "http://www.algorithm.uni-bayreuth.de/en/research/SYMMETRICA/")
(synopsis "Combinatoric C Library")
(description "Symmetrica is a library for combinatorics. It has support
for the representation theory of the symmetric group and related groups,
combinatorics of tableaux, symmetric functions and polynomials, Schubert
polynomials, and the representation theory of Hecke algebras of type A_n.")
(license license:public-domain)))

38
gnu/packages/patches/symmetrica-bruch.patch Normal file
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@ -0,0 +1,38 @@
--- src/bruch.c 2007-12-06 11:30:00.000000000 -0500
+++ b/bruch.c 2013-10-22 08:37:43.000000000 -0400
@@ -975,14 +975,16 @@
ggterg = ggt_i(S_B_UI(bruch),S_B_OI(bruch));
if (ggterg == S_B_UI(bruch)) {
+ INT tmp = S_B_OI(bruch);
freeself_bruch(bruch);
- M_I_I(S_B_OI(bruch) / ggterg,bruch);
+ M_I_I(tmp / ggterg,bruch);
goto ende;
}
if (-ggterg == S_B_UI(bruch)) {
+ INT tmp = S_B_OI(bruch);
freeself_bruch(bruch);
- M_I_I(- S_B_OI(bruch) / ggterg,bruch);
+ M_I_I(- tmp / ggterg,bruch);
goto ende;
}
@@ -1032,12 +1034,14 @@
if (S_O_K(S_B_U(bruch)) == INTEGER)
if (S_B_UI(bruch) == 1) {
+ INT tmp = S_B_OI(bruch);
freeself_bruch(bruch);
- M_I_I(S_B_OI(bruch),bruch);
+ M_I_I(tmp,bruch);
goto ende; }
else if (S_B_UI(bruch) == -1) {
+ INT tmp = S_B_OI(bruch);
freeself_bruch(bruch);
- M_I_I( - S_B_OI(bruch),bruch);
+ M_I_I( - tmp,bruch);
goto ende; }
if (NEGP(S_B_O(bruch)) && NEGP(S_B_U(bruch)))
{

37
gnu/packages/patches/symmetrica-int32.patch Normal file
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@ -0,0 +1,37 @@
diff -ru src/def.h c/def.h
--- src/def.h 2007-12-06 17:30:56.000000000 +0100
+++ c/def.h 2013-10-19 18:42:55.118745730 +0200
@@ -2,14 +2,9 @@
/* INT should always be 4 byte */
#ifndef DEF_H
-
-#ifdef __alpha
-typedef int INT;
-typedef unsigned int UINT;
-#else /* __alpha */
-typedef long INT;
-typedef unsigned long UINT;
-#endif /* __alpha */
+#include <stdint.h>
+typedef int32_t INT;
+typedef uint32_t UINT;
#include <stdio.h>
#include <memory.h>
@@ -65,10 +60,13 @@
/* definitionen fuer object.c */
-typedef INT OBJECTKIND; /* 4 byte */
+/* NOTE: partition code assumes that there is no unused space in the
+ * object struct when an INT is stored. This requires both OBJECTKIND
+ * and OBJECTSELF to have a size equal to a machine word. */
+typedef intptr_t OBJECTKIND;
typedef union {
- INT ob_INT;
+ intptr_t ob_INT;
INT * ob_INTpointer;
char *ob_charpointer;
struct bruch *ob_bruch;

14
gnu/packages/patches/symmetrica-return_values.patch Normal file
View file

@ -0,0 +1,14 @@
diff -ru src/part.c b/part.c
--- src/part.c Thu May 14 06:01:00 2009 -0400
+++ b/part.c Thu May 14 06:01:00 2009 -0400
@@ -1767,8 +1767,8 @@
/* to compute number of partitions */
{
INT erg = OK;
- if (ni<0) return;
- if (not EMPTYP(S_V_I(vec,ni))) return;
+ if (ni<0) return 0;
+ if (not EMPTYP(S_V_I(vec,ni))) return 0;
else if (ni<=1) M_I_I(1,S_V_I(vec,ni));
else {

340
gnu/packages/patches/symmetrica-sort_sum_rename.patch Normal file
View file

@ -0,0 +1,340 @@
diff -r 5cd656a07aa5 src/bar.c
--- a/bar.c Thu May 14 06:01:00 2009 -0400
+++ b/bar.c Thu May 14 07:38:17 2009 -0400
@@ -237,7 +237,7 @@
g = callocobject();
e = S_V_I(a,0L);
f = S_V_I(a,1L);
- erg += sum(f,g);
+ erg += sym_sum(f,g);
j=0L;
for (i=0L;i<S_V_LI(e);i++)
j += S_V_II(e,i)*(i+1L);
@@ -427,7 +427,7 @@
for (i=0L;i<S_V_LI(b);i++)
erg += kranztypus_to_matrix(S_V_I(c,i),S_V_I(b,i));
erg += freeall(c);
- erg += sort(b); /* AK 130592 */
+ erg += sym_sort(b); /* AK 130592 */
ENDR("makevectorof_class_bar");
}
@@ -615,7 +615,7 @@
c = callocobject();
d = callocobject();
erg += lehmercode_bar(a,c);
- erg += sum(S_V_I(c,1L),b);
+ erg += sym_sum(S_V_I(c,1L),b);
for(i=0L;i<S_P_LI(a);i++)
{
if (S_V_II(S_V_I(c,0L),i) == 1L)
diff -r 5cd656a07aa5 src/def.h
--- a/def.h Thu May 14 06:01:00 2009 -0400
+++ b/def.h Thu May 14 07:38:17 2009 -0400
@@ -3105,7 +3105,7 @@
extern INT so_character ();
extern INT so_dimension ();
extern OBJECTKIND s_o_k();
-extern INT sort();
+extern INT sym_sort();
extern INT sort_rows_tableaux_apply();
extern INT sort_vector();
extern OBJECTSELF s_o_s();
@@ -3271,7 +3271,7 @@
extern INT sub_part_part();
extern INT substitute_one_matrix ();
extern INT substitute_one_monopoly ();
-extern INT sum();
+extern INT sym_sum();
extern INT sum_integervector();
extern INT sum_matrix();
extern INT sum_vector();
diff -r 5cd656a07aa5 src/di.c
--- a/di.c Thu May 14 06:01:00 2009 -0400
+++ b/di.c Thu May 14 07:38:17 2009 -0400
@@ -1355,7 +1355,7 @@
m_il_nv(0L,weight_watcher);
m_il_nv(0L,perm_vec);
copy(S_V_I(FP,0L),fix);
- sort(fix);
+ sym_sort(fix);
get_perm(hweight,p,b,S_I_I(n),S_I_I(m),0L,
perm_vec,weight_watcher,fix);
@@ -1502,7 +1502,7 @@
if(ind == m)
{
mult_perm_fix(p,fix,hfix);
- sort(hfix);
+ sym_sort(hfix);
if(!hfix_in_ww(hfix,ww))
{
inc(ww);
diff -r 5cd656a07aa5 src/ga.c
--- a/ga.c Thu May 14 06:01:00 2009 -0400
+++ b/ga.c Thu May 14 07:38:17 2009 -0400
@@ -632,7 +632,7 @@
else if (what == 0L)
erg += vertikal_sum(S_V_L(a),c);
erg += copy(a,d);
- erg += sort(d);
+ erg += sym_sort(d);
erg += m_il_p(S_V_II(d,S_V_LI(d)-1L),e); /* identitaet */
for (i=0L,k=0L,j=S_V_LI(d);i<S_P_LI(e);i++)
if (i+1L == S_V_II(d,k) )
@@ -722,7 +722,7 @@
j=0L;
erg += append(h,g,h2);
- erg += sort(h2);
+ erg += sym_sort(h2);
for (i=0L;i<S_V_LI(g);i++)
{
erg += m_i_i(S_V_II(g,i),S_P_I(a,j));
diff -r 5cd656a07aa5 src/galois.c
--- a/galois.c Thu May 14 06:01:00 2009 -0400
+++ b/galois.c Thu May 14 07:38:17 2009 -0400
@@ -758,7 +758,7 @@
}
}
FREEALL2(v,nv);
- sort(res);
+ sym_sort(res);
}
S3R(k,phg_c,phg_d,"all_points_phg_store",res);
ENDR("all_points");
diff -r 5cd656a07aa5 src/macro.h
--- a/macro.h Thu May 14 06:01:00 2009 -0400
+++ b/macro.h Thu May 14 07:38:17 2009 -0400
@@ -1,6 +1,8 @@
/* file: macro.h symmetrica source code */
#ifndef MACRO_H
+#include "string.h"
+
#ifdef SYMMAGMA
#define SYM_MALLOC(a) mem_malloc(a)
#else
#define C_O_K(a,b) ((a)->ob_kind = (OBJECTKIND)(b))
--- a/nc.c Thu May 14 06:01:00 2009 -0400
+++ b/nc.c Thu May 14 07:38:17 2009 -0400
@@ -204,7 +204,7 @@
erg += mult(S_NC_C(a),S_NC_C(b),d);
erg += m_gl_co(S_NC_GL(a),e);
erg += mult_apply(e,d);
- erg += sum(d,e);
+ erg += sym_sum(d,e);
erg += m_gl_go(S_NC_GL(a),d);
erg += div(e,d,c);
erg += freeall(e);
@@ -617,7 +617,7 @@
erg += mult_nc_kranz(c,a,e);
erg += mult(S_V_I(e,1L),f,c);
erg += div(c,g,c);
- erg += sum(c,S_V_I(S_NC_C(b),S_I_I(d)));
+ erg += sym_sum(c,S_V_I(S_NC_C(b),S_I_I(d)));
}
erg += freeall(c);
erg += freeall(d);
@@ -712,7 +712,7 @@
for(j = 0L; j<S_V_LI(c);j++) {
kranztypus_to_matrix(S_V_I(c,j),S_V_I(a,j));
}
- sort(a);
+ sym_sort(a);
freeall(f); freeall(h); freeall(c);
return OK;
}
@@ -739,7 +739,7 @@
kranztypus_to_matrix(S_V_I(c,j),S_V_I(h,j));
}
- sort(h);
+ sym_sort(h);
m_l_v(S_V_L(h),a);
for(j = 0L; j<S_V_LI(c);j++) {
typusorder(S_V_I(h,j), zb, za, S_V_I(a,j), f);
@@ -789,7 +789,7 @@
erg += kranztypus_to_matrix(S_V_I(c,j),S_V_I(h,j));
}
- erg += sort(h);
+ erg += sym_sort(h);
erg += typusorder(S_V_I(h,S_I_I(i)), zb, za, a, f);
erg += freeall(f);
erg += freeall(c);
diff -r 5cd656a07aa5 src/nu.c
--- a/nu.c Thu May 14 06:01:00 2009 -0400
+++ b/nu.c Thu May 14 07:38:17 2009 -0400
@@ -531,13 +531,13 @@
ENDR("add");
}
-INT sort(a) OP a;
+INT sym_sort(a) OP a;
/* sortiert das object in aufsteigender reihenfolge AK 270787 */
/* AK 160986 */ /* AK 280689 V1.0 */ /* AK 050390 V1.1 */
/* AK 070891 V1.3 */
{
INT erg = OK;
- EOP("sort(1)",a);
+ EOP("sym_sort(1)",a);
switch(S_O_K(a))
{
@@ -547,9 +547,9 @@
erg += sort_vector(a);break;
#endif /* VECTORTRUE */
default:
- erg += WTO("sort",a); break;
+ erg += WTO("sym_sort",a); break;
};
- ENDR("sort");
+ ENDR("sym_sort");
}
INT length(a,d) OP a,d;
@@ -641,7 +641,7 @@
ENDR("content");
}
-INT sum(a,res) OP a,res;
+INT sym_sum(a,res) OP a,res;
/* AK 280689 V1.0 */ /* AK 050390 V1.1 */ /* AK 120391 V1.2 */
/* AK 140891 V1.3 */
/* AK 170298 V2.0 */
@@ -649,7 +649,7 @@
INT erg = OK;
COP("sum(1)",a);
COP("sum(2)",res);
- CE2(a,res,sum);
+ CE2(a,res,sym_sum);
switch(S_O_K(a))
{
@@ -680,7 +680,7 @@
erg += WTO("sum",a); break;
};
- ENDR("sum");
+ ENDR("sym_sum");
}
diff -r 5cd656a07aa5 src/part.c
--- a/part.c Thu May 14 06:01:00 2009 -0400
+++ b/part.c Thu May 14 07:38:17 2009 -0400
@@ -347,7 +347,7 @@
if (a == b) { /* a := a+a */
if (S_PA_K(a) == VECTOR) {
erg += append_apply_vector(S_PA_S(a),S_PA_S(b));
- erg += sort(S_PA_S(a));
+ erg += sym_sort(S_PA_S(a));
goto endr_ende;
}
else if (S_PA_K(a) == EXPONENT) {
@@ -406,7 +406,7 @@
k=S_PA_LI(b)-1;
/*
erg += append_apply_vector(S_PA_S(a),S_PA_S(b));
- erg += sort(S_PA_S(a));
+ erg += sym_sort(S_PA_S(a));
*/
inc_vector_co(S_PA_S(a),S_PA_LI(b));
for (j=S_PA_LI(a)-1;j>=0;j--)
diff -r 5cd656a07aa5 src/perm.c
--- a/perm.c Thu May 14 06:01:00 2009 -0400
+++ b/perm.c Thu May 14 07:38:17 2009 -0400
@@ -833,9 +833,9 @@
/* s = Anzahl der spalten */
s = S_V_LI(S_V_I(a,0L));
- sum(S_V_I(a,0L),summe);/* composition ist vector */
+ sym_sum(S_V_I(a,0L),summe);/* composition ist vector */
z = S_I_I(summe);
- FREEALL(summe);
+ FREEALL(summe);
m_ilih_nm(s,z,b);
C_O_K(b,KRANZTYPUS);
for (i=0L;i<s;i++)
@@ -1114,7 +1114,7 @@
erg += kranztypus_to_matrix(S_V_I(c,i),S_V_I(h,i));
}
- erg += sort(h);
+ erg += sym_sort(h);
erg += chartafel(b,ct);
@@ -1926,7 +1926,7 @@
OP c;
c = CALLOCOBJECT();
erg += lehmercode_permutation(a,c); /*result is a vector */
- erg += sum(c,b);
+ erg += sym_sum(c,b);
FREEALL(c);
}
ENDR("numberof_inversionen");
@@ -2364,7 +2364,7 @@
COP("rz_lehmercode(2)",b);
zw = callocobject();
- erg += sum(lc,zw);
+ erg += sym_sum(lc,zw);
if (NULLP(zw))
{
erg += m_il_integervector((INT)0,b);
diff -r 5cd656a07aa5 src/rest.c
--- a/rest.c Thu May 14 06:01:00 2009 -0400
+++ b/rest.c Thu May 14 07:38:17 2009 -0400
@@ -3998,7 +3998,7 @@
oj = j;
}
}
- erg += sum(c,b);
+ erg += sym_sum(c,b);
eee:
erg += freeall(c);
ENDR("charge_word");
diff -r 5cd656a07aa5 src/ta.c
--- a/ta.c Thu May 14 06:01:00 2009 -0400
+++ b/ta.c Thu May 14 07:38:17 2009 -0400
@@ -1596,7 +1596,7 @@
{
OP d,e;
e = CALLOCOBJECT();
- erg += sum(content,e); /* AK 271098 */
+ erg += sym_sum(content,e); /* AK 271098 */
d = CALLOCOBJECT();
erg += weight(shape,d);
if (NEQ(d,e))
@@ -1821,7 +1821,7 @@
CE3(matrix, column_index, row_index,matrix_twoword);
c = callocobject();
erg += zeilen_summe(matrix,c);
- erg += sum(c,c);
+ erg += sym_sum(c,c);
erg += m_l_v(c,column_index);
erg += m_l_v(c,row_index);
for(i=0,l=0;i<S_M_HI(matrix);i++)
diff -r 5cd656a07aa5 src/zyk.c
--- a/zyk.c Thu May 14 06:01:00 2009 -0400
+++ b/zyk.c Thu May 14 07:38:17 2009 -0400
@@ -804,7 +804,7 @@
zykeltypvec = CALLOCOBJECT();
ak_order = CALLOCOBJECT();
- sum(numztvec,ak_order); /* AK 060295 */
+ sym_sum(numztvec,ak_order); /* AK 060295 */
@@ -1176,7 +1176,7 @@
erg += m_i_i(0,c);
while (z!=NULL)
{
- erg += sum(S_PO_S(z),e);
+ erg += sym_sum(S_PO_S(z),e);
erg += hoch(b,e,e);
erg += mult_apply(S_PO_K(z),e);
erg += add_apply(e,c);