Remove unneeded dependencies of the Sage library

[jdemeyer]

According to spkg/standard/deps, the sage library depends on:

$(INST)/$(SAGE): $(BASE) \
         $(INST)/$(SAGE_SCRIPTS) \
         $(INST)/$(ATLAS) \
         $(INST)/$(CEPHES) \
         $(INST)/$(CLIQUER) \
         $(INST)/$(CONWAY) \
         $(INST)/$(CYTHON) \
         $(INST)/$(DOCUTILS) \
         $(INST)/$(ECL) \
         $(INST)/$(ECLIB) \
         $(INST)/$(ECM) \
         $(INST)/$(ELLIPTIC_CURVES) \
         $(INST)/$(EXTCODE) \
         $(INST)/$(FLINT) \
         $(INST)/$(FPLLL) \
         $(INST)/$(GDMODULE) \
         $(INST)/$(GRAPHS) \
         $(INST)/$(GIVARO) \
         $(INST)/$(GLPK) \
         $(INST)/$(GSL) \
         $(INST)/$(IML) \
         $(INST)/$(IPYTHON) \
         $(INST)/$(LCALC) \
         $(INST)/$(LIBM4RI) \
         $(INST)/$(LIBM4RIE) \
         $(INST)/$(LINBOX) \
         $(INST)/$(MATPLOTLIB) \
         $(INST)/$(MERCURIAL) \
         $(INST)/$(MPFI) \
         $(INST)/$(MPFR) \
         $(INST)/$(MPIR) \
         $(INST)/$(MPMATH) \
         $(INST)/$(NETWORKX) \
         $(INST)/$(NTL) \
         $(INST)/$(NUMPY) \
         $(INST)/$(PARI) \
         $(INST)/$(PEXPECT) \
         $(INST)/$(POLYBORI) \
         $(INST)/$(PPL) \
         $(INST)/$(PYCRYPTO) \
         $(INST)/$(PYNAC) \
         $(INST)/$(PYTHON) \
         $(INST)/$(R) \
         $(INST)/$(RATPOINTS) \
         $(INST)/$(RUBIKS) \
         $(INST)/$(SAGENB) \
         $(INST)/$(SCONS) \
         $(INST)/$(SETUPTOOLS) \
         $(INST)/$(SINGULAR) \
         $(INST)/$(SYMMETRICA) \
         $(INST)/$(SYMPY) \
         $(INST)/$(ZNPOLY)

However, only components which are needed at build-time should be listed here.

Apply attachment: 12329_prune_deps.patch to the sage root repository.

With this patch, building just the Sage library using

cd spkg
./install installed/sage-4.8   # put the correct version here

works fine, also using a parallel build.

Just for information: using "make -j", this is the critical path to build the Sage library (every packge in this list depends on the one just above it):

(base)
patch
iconv
libgpg_error
libgcrypt
opencdk
gnutls
python
fortran
lapack
atlas
linbox
sage

Component: build

Author: Jeroen Demeyer

Reviewer: François Bissey

Merged: sage-5.0.beta2

Issue created by migration from https://trac.sagemath.org/ticket/12329

[jdemeyer]

Description changed:

--- 
+++ 
@@ -54,4 +54,6 @@
          $(INST)/$(SYMPY) \
          $(INST)/$(ZNPOLY)
 ```
-However, only components which are needed at build-time should be listed here.  I think for example R can be removed.
+However, only components which are needed at build-time should be listed here.
+
+Apply [attachment: 12329_prune_deps.patch](https://github.com/sagemath/sage-prod/files/10654567/12329_prune_deps.patch.gz) to the sage root repository.

[jdemeyer]

Author: Jeroen Demeyer

[jdemeyer]

Description changed:

--- 
+++ 
@@ -56,4 +56,30 @@
 ```
 However, only components which are needed at build-time should be listed here.
 
-Apply [attachment: 12329_prune_deps.patch](https://github.com/sagemath/sage-prod/files/10654567/12329_prune_deps.patch.gz) to the sage root repository.
+**Apply** [attachment: 12329_prune_deps.patch](https://github.com/sagemath/sage-prod/files/10654567/12329_prune_deps.patch.gz) to the sage root repository.
+
+With this patch, building just the Sage library using
+
+```
+cd spkg
+./install sage-4.8   # put the correct version here
+```
+works fine, also using a parallel build.
+
+Just for information: using "make -j", this is the critical path to build the Sage library (every packge in this list depends on the one just above it):
+
+```
+(base)
+patch
+iconv
+libgpg_error
+libgcrypt
+opencdk
+gnutls
+python
+fortran
+lapack
+atlas
+linbox
+sage
+```

[jdemeyer]

Description changed:

--- 
+++ 
@@ -62,7 +62,7 @@
 
 ```
 cd spkg
-./install sage-4.8   # put the correct version here
+./install installed/sage-4.8   # put the correct version here
 ```
 works fine, also using a parallel build.
 

[ohanar]

comment:4

I'm fairly certain the sage library does not need $(INST)/$(ELLIPTIC_CURVES) either (all that package does is install a couple of databases to SAGE_DATA).

[jdemeyer]

comment:5

You are right, I confused with ECLIB (which certainly is needed). New patch, needs review.

[kiwifb]

comment:6

Coming from sage-on-gentoo, I am not sure at all that GRAPHS needs to be there. We very much build sage without needing mercurial but we do things a bit differently so that one needs caution. I don't think mpmath is needed to build either if it is we have a bug in sage-on-gentoo.

[kiwifb]

comment:7

While gdmodule is not needed gd actually is and so is png.

    Extension('sage.matrix.matrix_mod2_dense',
              sources = ['sage/matrix/matrix_mod2_dense.pyx'],
              libraries = ['gmp','m4ri', 'gd', 'png12', 'z'],
              depends = [SAGE_ROOT + "/local/include/png.h", SAGE_ROOT + "/local/include/m4ri/m4ri.h"]),

for example from module_list.py. Of course these two are needed for polybori so you are probably covered. readline is also there but other dependencies may include it. I cannot check right now.