[bug#56729] [RFC PATCH 05/10] gnu: lcalc: Update to 2.0.5.

[vicvbcun]

* gnu/packages/sagemath.scm (lcalc): Update to 2.0.5.
* gnu/packages/patches/lcalc-default-parameters-1.patch,
gnu/packages/patches/lcalc-default-parameters-2.patch,
gnu/packages/patches/lcalc-lcommon-h.patch,
gnu/packages/patches/lcalc-using-namespace-std.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Remove here.
---
 gnu/local.mk                                  |  4 --
 .../patches/lcalc-default-parameters-1.patch  | 26 -------
 .../patches/lcalc-default-parameters-2.patch  | 58 ---------------
 gnu/packages/patches/lcalc-lcommon-h.patch    | 13 ----
 .../patches/lcalc-using-namespace-std.patch   | 43 -----------
 gnu/packages/sagemath.scm                     | 71 ++++++-------------
 6 files changed, 20 insertions(+), 195 deletions(-)
 delete mode 100644 gnu/packages/patches/lcalc-default-parameters-1.patch
 delete mode 100644 gnu/packages/patches/lcalc-default-parameters-2.patch
 delete mode 100644 gnu/packages/patches/lcalc-lcommon-h.patch
 delete mode 100644 gnu/packages/patches/lcalc-using-namespace-std.patch

diff --git a/gnu/local.mk b/gnu/local.mk
index 07e3497d10..84c88ea905 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -1371,10 +1371,6 @@ dist_patch_DATA =                                        
        \
   %D%/packages/patches/kodi-set-libcurl-ssl-parameters.patch           \
   %D%/packages/patches/kodi-skip-test-449.patch                \
   %D%/packages/patches/laby-make-install.patch                 \
-  %D%/packages/patches/lcalc-default-parameters-1.patch                \
-  %D%/packages/patches/lcalc-default-parameters-2.patch                \
-  %D%/packages/patches/lcalc-lcommon-h.patch                   \
-  %D%/packages/patches/lcalc-using-namespace-std.patch                 \
   %D%/packages/patches/ldns-drill-examples.patch               \
   %D%/packages/patches/leela-zero-gtest.patch                  \
   %D%/packages/patches/less-hurd-path-max.patch                        \
diff --git a/gnu/packages/patches/lcalc-default-parameters-1.patch 
b/gnu/packages/patches/lcalc-default-parameters-1.patch
deleted file mode 100644
index 19b0776320..0000000000
--- a/gnu/packages/patches/lcalc-default-parameters-1.patch
+++ /dev/null
@@ -1,26 +0,0 @@
-Patch taken from the Sage packaging system.
-
-diff -Naur lcalc-1.23-vanilla/include/Ldirichlet_series.h 
lcalc-1.23-fixed-gcc.4.9/include/Ldirichlet_series.h
---- lcalc-1.23-vanilla/include/Ldirichlet_series.h     2012-08-08 
23:21:55.000000000 +0200
-+++ lcalc-1.23-fixed-gcc.4.9/include/Ldirichlet_series.h       2014-04-21 
14:37:59.027464849 +0200
-@@ -43,7 +43,7 @@
-  //XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
- template <class ttype>
- Complex L_function <ttype>::
--dirichlet_series(Complex s, long long N=-1)
-+dirichlet_series(Complex s, long long N)
- {
-     Complex z=0.;
-     long long m,n;
-diff -Naur lcalc-1.23-vanilla/include/L.h lcalc-1.23-fixed-gcc.4.9/include/L.h
---- lcalc-1.23-vanilla/include/L.h     2012-08-08 23:21:55.000000000 +0200
-+++ lcalc-1.23-fixed-gcc.4.9/include/L.h       2014-04-21 14:32:04.003467348 
+0200
-@@ -491,7 +491,7 @@
- 
-     //#include "Ldirichlet_series.h" //for computing Dirichlet series
-     Complex partial_dirichlet_series(Complex s, long long N1, long long N2);
--    Complex dirichlet_series(Complex s, long long N);
-+    Complex dirichlet_series(Complex s, long long N=-1LL);
- 
-     //#include "Ltaylor_series.h" //for computing taylor series for Dirichlet 
series
-     //void compute_taylor_series(int N, int K, Complex s_0, Complex *series);
diff --git a/gnu/packages/patches/lcalc-default-parameters-2.patch 
b/gnu/packages/patches/lcalc-default-parameters-2.patch
deleted file mode 100644
index 1d881ee0c4..0000000000
--- a/gnu/packages/patches/lcalc-default-parameters-2.patch
+++ /dev/null
@@ -1,58 +0,0 @@
-Patch taken from the Sage packaging system.
-
---- lcalc-1.23/include/Lgamma.h        2012-08-08 23:21:55.000000000 +0200
-+++ lcalc-1.23/include/Lgamma.h        2014-05-18 21:15:27.786889718 +0200
-@@ -77,7 +77,7 @@
- //n=0 should just give log_GAMMA(z)... thus making log_GAMMA
- //code obsolete. But leave log_GAMMA intact anyways.
- template <class ttype>
--precise(ttype) log_GAMMA (ttype z,int n=0)
-+precise(ttype) log_GAMMA (ttype z,int n)
- {
-     int M;
-     precise(ttype) log_G,r,r2,y;
-@@ -230,7 +230,7 @@
- //value exp_w which holds exp(-w)
- //computes G(z,w), so there's an extra w^(-z) factor.
- template <class ttype>
--Complex inc_GAMMA (ttype z,ttype w, const char *method="temme", ttype exp_w = 
0, bool recycle=false)
-+Complex inc_GAMMA (ttype z,ttype w, const char *method, ttype exp_w, bool 
recycle)
- {
- 
-     Complex G;
-@@ -334,7 +334,7 @@
- 
- 
- template <class ttype>
--ttype cfrac_GAMMA (ttype z,ttype w, ttype exp_w=0, bool recycle=false)  
//computes G(z,w) via continued fraction
-+ttype cfrac_GAMMA (ttype z,ttype w, ttype exp_w, bool recycle)  //computes 
G(z,w) via continued fraction
- {
- 
-         ttype G;
-@@ -424,7 +424,7 @@
- }
- 
- template <class ttype>
--ttype asympt_GAMMA (ttype z,ttype w, ttype exp_w = 0, bool recycle=false)  
//computes G(z,w) via asymptotic series
-+ttype asympt_GAMMA (ttype z,ttype w, ttype exp_w, bool recycle)  //computes 
G(z,w) via asymptotic series
- {
- 
-         if(my_verbose>3) cout << "called asympt_GAMMA("<<z<<","<<w<<")"<< 
endl;
-@@ -446,7 +446,7 @@
- 
- 
- template <class ttype>
--ttype comp_inc_GAMMA (ttype z,ttype w,ttype exp_w = 0, bool recycle=false)  
//computes g(z,w)
-+ttype comp_inc_GAMMA (ttype z,ttype w,ttype exp_w, bool recycle)  //computes 
g(z,w)
- {
- 
-     ttype g;
-@@ -604,7 +604,7 @@
- }
- 
- template <class ttype>
--Complex gamma_sum(Complex s, int what_type, ttype *coeff, int N, Double g, 
Complex l, Double Q, Long Period, Complex delta=1, const char *method="temme")
-+Complex gamma_sum(Complex s, int what_type, ttype *coeff, int N, Double g, 
Complex l, Double Q, Long Period, Complex delta, const char *method)
- {
-     Complex SUM=0;
- 
diff --git a/gnu/packages/patches/lcalc-lcommon-h.patch 
b/gnu/packages/patches/lcalc-lcommon-h.patch
deleted file mode 100644
index 897956de64..0000000000
--- a/gnu/packages/patches/lcalc-lcommon-h.patch
+++ /dev/null
@@ -1,13 +0,0 @@
-Patch taken from the Sage packaging system.
-
---- src/include/Lcommon.h      2010-01-31 15:16:45.000000000 +0000
-+++ src/include/Lcommon.h      2011-03-08 21:19:11.849443238 +0000
-@@ -25,7 +25,7 @@
- #ifdef USE_MPFR
- inline double lcalc_to_double(const double& x) { return x; }
- #endif
--//inline double lcalc_to_double(const long double& x) { return x; }
-+inline double lcalc_to_double(const long double& x) { return x; }
- inline double lcalc_to_double(const int& x) { return x; }
- inline double lcalc_to_double(const long long& x) { return x; }
- inline double lcalc_to_double(const short& x) { return x; }
diff --git a/gnu/packages/patches/lcalc-using-namespace-std.patch 
b/gnu/packages/patches/lcalc-using-namespace-std.patch
deleted file mode 100644
index 6e0075fdc8..0000000000
--- a/gnu/packages/patches/lcalc-using-namespace-std.patch
+++ /dev/null
@@ -1,43 +0,0 @@
-Patch taken from the Sage packaging system.
-
-diff --git a/include/Lcommon.h b/include/Lcommon.h
-index 1b3be43..bf40532 100644
---- a/include/Lcommon.h
-+++ b/include/Lcommon.h
-@@ -48,7 +48,7 @@ const bool outputSeries=true;          // Whether to output 
the coefficients or just th
- 
- // Loop i from m to n
- // Useful in tidying up most for loops
--#define loop(i,m,n) for(typeof(m) i=(m); i!=(n); i++)
-+#define loop(i,m,n) for(auto i=(m); i!=(n); i++)
- 
- // A class for calculations involving polynomials of small degree
- // Not efficient enough for huge polynomials
-diff --git a/include/Lcommon_ld.h b/include/Lcommon_ld.h
-index 86ae4df..33c560c 100644
---- a/include/Lcommon_ld.h
-+++ b/include/Lcommon_ld.h
-@@ -53,7 +53,7 @@ const bool outputSeries=true;          // Whether to output 
the coefficients or just th
- 
- // Loop i from m to n
- // Useful in tidying up most for loops
--#define loop(i,m,n) for(typeof(m) i=(m); i!=(n); i++)
-+#define loop(i,m,n) for(auto i=(m); i!=(n); i++)
- 
- // A class for calculations involving polynomials of small degree
- // Not efficient enough for huge polynomials
-diff --git a/include/Lglobals.h b/include/Lglobals.h
-index 60002e4..ca2606c 100644
---- a/include/Lglobals.h
-+++ b/include/Lglobals.h
-@@ -24,9 +24,9 @@
- #ifndef Lglobals_H
- #define Lglobals_H
- 
-+#include <valarray>
- using namespace std;
- 
--#include <valarray>
- #ifdef USE_MPFR
-     #include "Lgmpfrxx.h"
-     typedef mpfr_class Double;
diff --git a/gnu/packages/sagemath.scm b/gnu/packages/sagemath.scm
index b29620a946..1237ff8e04 100644
--- a/gnu/packages/sagemath.scm
+++ b/gnu/packages/sagemath.scm
@@ -38,6 +38,7 @@ (define-module (gnu packages sagemath)
   #:use-module (gnu packages lisp)
   #:use-module (gnu packages multiprecision)
   #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages popt)
   #:use-module (gnu packages python)
   #:use-module (gnu packages python-xyz))
 
@@ -292,59 +293,27 @@ (define-public brial
 (define-public lcalc
   (package
     (name "lcalc")
-    (version "1.23")
-    ;; The original home page of the project has disappeared, as well as
-    ;; code hosted by the original author on Google Code. The latter has
-    ;; been copied to gitlab.com/sagemath and purportedly contains patches
-    ;; for a never released version 1.3, that supposedly follows 1.23.
-    ;; We use the tarball as well as the patches hosted inside the sage
-    ;; package system distributed with the sage tarball.
-    (source
-     (origin
-       (method url-fetch)
-       (uri (string-append "ftp://ftp.fu-berlin.de/unix/misc/sage/spkg/";
-                           "upstream/lcalc/lcalc-1.23.tar.bz2"))
-       (sha256
-        (base32
-         "1c6dsdshgxhqppjxvxhp8yhpxaqvnz3d1mlh26r571gkq8z2bm43"))
-       (patches (search-patches "lcalc-lcommon-h.patch"
-                                "lcalc-default-parameters-1.patch"
-                                "lcalc-default-parameters-2.patch"
-                                "lcalc-using-namespace-std.patch"))))
+    (version "2.0.5")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://gitlab.com/sagemath/lcalc";)
+                    (commit version)))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "1rwyx292y3jbsp88wagn9nhl9z7wsnl2yrs5imxkbxq87pnrj5a7"))))
     (build-system gnu-build-system)
     (arguments
-     `(#:tests? #f ;no tests
-       #:phases
-       (modify-phases %standard-phases
-         (delete 'configure)
-         (add-before 'build 'prepare-build
-           (lambda* (#:key outputs #:allow-other-keys)
-             (chdir "src")
-             (let ((out (assoc-ref outputs "out")))
-               (substitute* "Makefile"
-                 (("^INSTALL_DIR= /usr/local")
-                  (string-append "INSTALL_DIR=" out))))
-             #t))
-         (add-before 'install 'make-output-dirs
-           (lambda* (#:key outputs #:allow-other-keys)
-             (let* ((out (assoc-ref outputs "out"))
-                    (bin (string-append out "/bin"))
-                    (lib (string-append out "/lib"))
-                    (include (string-append out "/include")))
-               (mkdir-p bin)
-               (mkdir-p lib)
-               (mkdir-p include))
-             #t)))))
-    ;; FIXME:
-    ;; We need to add pari-gp and probably pari related patches from the
-    ;; sage project, as well as uncomment the line setting PARI_DEFINE in
-    ;; the Makefile to get the full functionality of this package.
-    ;; For the time being, we hope that sage can be compiled without.
-    (synopsis "C++ library for L-functions")
-    (description "Lcalc computes L-functions, in particular the Riemann
-zeta function and its twists by quadratic characters.")
-    (license license:gpl2+)
-    (home-page "https://gitlab.com/sagemath/sage";)))
+     (list #:configure-flags '(list "--with-pari")))
+    (inputs (list pari-gp))
+    (native-inputs (list autoconf automake libtool pkg-config gengetopt))
+    (home-page "https://gitlab.com/sagemath/lcalc";)
+    (synopsis "C++ library for with L-functions")
+    (description
+     "Lcalc computes L-functions, in particular the Riemann zeta function and 
its
+twists by quadratic characters.")
+    (license license:gpl2+)))
 
 (define-public ratpoints
   (package
-- 
2.37.0