Re: [sage-release] Re: Sage 8.5.beta5 released
On Wednesday, November 28, 2018 at 9:49:53 AM UTC+1, François Bissey wrote: > > That’s interesting. I thought the failures in sage/databases/sql_db.py in > sage-on-gentoo > were due to the use of a newer version of sqlite. But if you see it too > that must be something > more subtle. > > I just created https://trac.sagemath.org/ticket/26920 for the issue with sql_db.py since it is still a problem with 8.5.rc0. -- You received this message because you are subscribed to the Google Groups "sage-release" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-release+unsubscr...@googlegroups.com. To post to this group, send email to sage-release@googlegroups.com. Visit this group at https://groups.google.com/group/sage-release. For more options, visit https://groups.google.com/d/optout.
Re: [sage-release] Re: Sage 8.5.beta5 released
This is definitely it. It introduced the doctests in question. I guess
I should have provided that extra info.
> On 28/11/2018, at 22:11, fchapot...@gmail.com wrote:
>
> Could be caused by https://trac.sagemath.org/ticket/26702
>
> Le mercredi 28 novembre 2018 09:49:53 UTC+1, François Bissey a écrit :
> That’s interesting. I thought the failures in sage/databases/sql_db.py in
> sage-on-gentoo
> were due to the use of a newer version of sqlite. But if you see it too that
> must be something
> more subtle.
>
> François
>
> > On 28/11/2018, at 21:46, Sébastien Labbé wrote:
> >
> > On Ubuntu 16.04, the command
> >
> > sage -t --all --optional=sage,optional,external
> >
> > tests the following optional and external doctests:
> >
> > Using
> > --optional=bliss,cbc,ccache,cmake,dot2tex,external,gmpy2,lrslib,memlimit,mpir,normaliz,notedown,pandoc_attributes,pycosat,pynormaliz,python2,rst2ipynb,sage
> >
> > External software detected for doctesting:
> > ffmpeg,graphviz,gurobi,imagemagick,internet,latex,pandoc
> >
> >
> > and gives All tests passed except the following ones:
> >
> > --
> > sage -t --long src/sage/databases/findstat.py # 5 doctests failed
> > sage -t --long src/sage/symbolic/integration/integral.py # 1 doctest
> > failed
> > sage -t --long src/sage/combinat/tutorial.py # 1 doctest failed
> > sage -t --long src/sage/symbolic/integration/external.py # 3 doctests
> > failed
> > sage -t --long src/sage/combinat/designs/ext_rep.py # 1 doctest failed
> > sage -t --long src/sage/repl/load.py # 1 doctest failed
> > sage -t --long src/sage/misc/persist.pyx # 2 doctests failed
> > sage -t --long src/sage/databases/sql_db.py # 2 doctests failed
> > --
> >
> >
> > Follow up at https://trac.sagemath.org/ticket/25536. New failures are
> > copied below.
> >
> >
> >
> > sage -t --long src/sage/combinat/tutorial.py
> > **
> > File "src/sage/combinat/tutorial.py", line 224, in sage.combinat.tutorial
> > Failed example:
> > oeis([1,1,2,5,14])# optional -- internet
> > Expected:
> > 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> > (2n)!/(n!(n+1)!). Also called Segner numbers.
> > 1: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> > 2: ...
> > Got:
> > 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> > (2n)!/(n!(n+1)!). Also called Segner numbers.
> > 1: A124302: Number of set partitions with at most 3 blocks; number of
> > Dyck paths of height at most 4; dimension of space of symmetric polynomials
> > in 3 noncommuting variables.
> > 2: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> > **
> > 1 item had failures:
> >1 of 249 in sage.combinat.tutorial
> > 5 tests for not implemented functionality not run
> > 6 not tested tests not run
> > 0 tests not run because we ran out of time
> > [248 tests, 1 failure, 24.70 s]
> >
> >
> > sage -t --long src/sage/databases/sql_db.py
> > **
> > File "src/sage/databases/sql_db.py", line 956, in
> > sage.databases.sql_db.SQLDatabase.__init__
> > Failed example:
> > D.show('simon')
> > Expected:
> > graph6 vertices edges
> >
> > ?00
> > @10
> > A? 20
> > A_ 21
> > B? 30
> > BG 31
> > BW 32
> > Bw 33
> > C? 40
> > C@ 41
> > CB 42
> > CF 43
> > CJ 43
> > CK 42
> > CL 43
> > CN 44
> > C] 44
> > C^ 45
> > C~ 46
> > Got:
> > graph6 vertices edges
> >
> > ?00
> > @10
> > A?
Re: [sage-release] Re: Sage 8.5.beta5 released
Could be caused by https://trac.sagemath.org/ticket/26702
Le mercredi 28 novembre 2018 09:49:53 UTC+1, François Bissey a écrit :
>
> That’s interesting. I thought the failures in sage/databases/sql_db.py in
> sage-on-gentoo
> were due to the use of a newer version of sqlite. But if you see it too
> that must be something
> more subtle.
>
> François
>
> > On 28/11/2018, at 21:46, Sébastien Labbé >
> wrote:
> >
> > On Ubuntu 16.04, the command
> >
> > sage -t --all --optional=sage,optional,external
> >
> > tests the following optional and external doctests:
> >
> > Using
> --optional=bliss,cbc,ccache,cmake,dot2tex,external,gmpy2,lrslib,memlimit,mpir,normaliz,notedown,pandoc_attributes,pycosat,pynormaliz,python2,rst2ipynb,sage
>
>
> > External software detected for doctesting:
> ffmpeg,graphviz,gurobi,imagemagick,internet,latex,pandoc
> >
> >
> > and gives All tests passed except the following ones:
> >
> > --
> > sage -t --long src/sage/databases/findstat.py # 5 doctests failed
> > sage -t --long src/sage/symbolic/integration/integral.py # 1 doctest
> failed
> > sage -t --long src/sage/combinat/tutorial.py # 1 doctest failed
> > sage -t --long src/sage/symbolic/integration/external.py # 3 doctests
> failed
> > sage -t --long src/sage/combinat/designs/ext_rep.py # 1 doctest failed
> > sage -t --long src/sage/repl/load.py # 1 doctest failed
> > sage -t --long src/sage/misc/persist.pyx # 2 doctests failed
> > sage -t --long src/sage/databases/sql_db.py # 2 doctests failed
> > --
> >
> >
> > Follow up at https://trac.sagemath.org/ticket/25536. New failures are
> copied below.
> >
> >
> >
> > sage -t --long src/sage/combinat/tutorial.py
> > **
> > File "src/sage/combinat/tutorial.py", line 224, in
> sage.combinat.tutorial
> > Failed example:
> > oeis([1,1,2,5,14])# optional -- internet
> > Expected:
> > 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> (2n)!/(n!(n+1)!). Also called Segner numbers.
> > 1: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> > 2: ...
> > Got:
> > 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> (2n)!/(n!(n+1)!). Also called Segner numbers.
> > 1: A124302: Number of set partitions with at most 3 blocks; number
> of Dyck paths of height at most 4; dimension of space of symmetric
> polynomials in 3 noncommuting variables.
> > 2: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> > **
> > 1 item had failures:
> >1 of 249 in sage.combinat.tutorial
> > 5 tests for not implemented functionality not run
> > 6 not tested tests not run
> > 0 tests not run because we ran out of time
> > [248 tests, 1 failure, 24.70 s]
> >
> >
> > sage -t --long src/sage/databases/sql_db.py
> > **
> > File "src/sage/databases/sql_db.py", line 956, in
> sage.databases.sql_db.SQLDatabase.__init__
> > Failed example:
> > D.show('simon')
> > Expected:
> > graph6 vertices edges
> >
> > ?00
> > @10
> > A? 20
> > A_ 21
> > B? 30
> > BG 31
> > BW 32
> > Bw 33
> > C? 40
> > C@ 41
> > CB 42
> > CF 43
> > CJ 43
> > CK 42
> > CL 43
> > CN 44
> > C] 44
> > C^ 45
> > C~ 46
> > Got:
> > graph6 vertices edges
> >
> > ?00
> > @10
> > A? 20
> > A_ 21
> > B? 30
> >
Re: [sage-release] Re: Sage 8.5.beta5 released
That’s interesting. I thought the failures in sage/databases/sql_db.py in
sage-on-gentoo
were due to the use of a newer version of sqlite. But if you see it too that
must be something
more subtle.
François
> On 28/11/2018, at 21:46, Sébastien Labbé wrote:
>
> On Ubuntu 16.04, the command
>
> sage -t --all --optional=sage,optional,external
>
> tests the following optional and external doctests:
>
> Using
> --optional=bliss,cbc,ccache,cmake,dot2tex,external,gmpy2,lrslib,memlimit,mpir,normaliz,notedown,pandoc_attributes,pycosat,pynormaliz,python2,rst2ipynb,sage
> External software detected for doctesting:
> ffmpeg,graphviz,gurobi,imagemagick,internet,latex,pandoc
>
>
> and gives All tests passed except the following ones:
>
> --
> sage -t --long src/sage/databases/findstat.py # 5 doctests failed
> sage -t --long src/sage/symbolic/integration/integral.py # 1 doctest failed
> sage -t --long src/sage/combinat/tutorial.py # 1 doctest failed
> sage -t --long src/sage/symbolic/integration/external.py # 3 doctests failed
> sage -t --long src/sage/combinat/designs/ext_rep.py # 1 doctest failed
> sage -t --long src/sage/repl/load.py # 1 doctest failed
> sage -t --long src/sage/misc/persist.pyx # 2 doctests failed
> sage -t --long src/sage/databases/sql_db.py # 2 doctests failed
> --
>
>
> Follow up at https://trac.sagemath.org/ticket/25536. New failures are copied
> below.
>
>
>
> sage -t --long src/sage/combinat/tutorial.py
> **
> File "src/sage/combinat/tutorial.py", line 224, in sage.combinat.tutorial
> Failed example:
> oeis([1,1,2,5,14])# optional -- internet
> Expected:
> 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> (2n)!/(n!(n+1)!). Also called Segner numbers.
> 1: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> 2: ...
> Got:
> 0: A000108: Catalan numbers: C(n) = binomial(2n,n)/(n+1) =
> (2n)!/(n!(n+1)!). Also called Segner numbers.
> 1: A124302: Number of set partitions with at most 3 blocks; number of
> Dyck paths of height at most 4; dimension of space of symmetric polynomials
> in 3 noncommuting variables.
> 2: A120588: G.f. satisfies: 3*A(x) = 2 + x + A(x)^2, with a(0) = 1.
> **
> 1 item had failures:
>1 of 249 in sage.combinat.tutorial
> 5 tests for not implemented functionality not run
> 6 not tested tests not run
> 0 tests not run because we ran out of time
> [248 tests, 1 failure, 24.70 s]
>
>
> sage -t --long src/sage/databases/sql_db.py
> **
> File "src/sage/databases/sql_db.py", line 956, in
> sage.databases.sql_db.SQLDatabase.__init__
> Failed example:
> D.show('simon')
> Expected:
> graph6 vertices edges
>
> ?00
> @10
> A? 20
> A_ 21
> B? 30
> BG 31
> BW 32
> Bw 33
> C? 40
> C@ 41
> CB 42
> CF 43
> CJ 43
> CK 42
> CL 43
> CN 44
> C] 44
> C^ 45
> C~ 46
> Got:
> graph6 vertices edges
>
> ?00
> @10
> A? 20
> A_ 21
> B? 30
> BG 31
> BW 32
> Bw 33
> C? 40
> C@ 41
> CB 42
Re: [sage-release] Re: Sage 8.5.beta5 released
On Mon, Nov 26, 2018 at 5:37 AM Steven Trogdon wrote: > > On my Gentoo changing the ownership was not sufficient. After changing the > ownership I had to > > git reset --hard HEAD > > which revealed that > > Updating f894105d0d..b36eca1990 > error: The following untracked working tree files would be overwritten by > merge: > > To correct this: > > git clean -f build/pkgs/barvinok/ > git clean -f build/pkgs/isl/ > git clean -f build/pkgs/lcalc/patches/ > git clean -f build/pkgs/polylib/ > > and now 'git pull' is up to date. This is all very strange. At some point you probably did *something* as root (and by "you" it might not have even been an action you personally took, but maybe some cron job you forgot about; who knows). But otherwise I don't think there's any way that would have happened. This happens to me too sometimes ¯\_(ツ)_/¯ Git repos don't store anything about uid/gid of files (that would be disastrous); in fact IIRC the only information it stores about file permissions is whether or not the executable bit should be set. > On Sunday, November 25, 2018 at 9:41:58 PM UTC-6, Samuel Lelievre wrote: >> >> > As far as I can recall 'git pull' was always done as a normal user. >> > Note the timestamp on the folders, which predates 8.5.beta4. >> > And this issue did not manifest itself then. But going forward, >> > how to correct things? >> >> Change to your SAGE_ROOT directory and run this as a normal user >> >> $ sudo chown -v -R $(id -u):$(id -g) . >> >> to set the owner and group of SAGE_ROOT (and recursively all >> the included files and directories) to your user and your group. > > -- > You received this message because you are subscribed to the Google Groups > "sage-release" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-release+unsubscr...@googlegroups.com. > To post to this group, send email to sage-release@googlegroups.com. > Visit this group at https://groups.google.com/group/sage-release. > For more options, visit https://groups.google.com/d/optout. -- You received this message because you are subscribed to the Google Groups "sage-release" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-release+unsubscr...@googlegroups.com. To post to this group, send email to sage-release@googlegroups.com. Visit this group at https://groups.google.com/group/sage-release. For more options, visit https://groups.google.com/d/optout.
Re: [sage-release] Re: Sage 8.5.beta5 released
On my Gentoo changing the ownership was not sufficient. After changing the ownership I had to git reset --hard HEAD which revealed that Updating f894105d0d..b36eca1990 error: The following untracked working tree files would be overwritten by merge: To correct this: git clean -f build/pkgs/barvinok/ git clean -f build/pkgs/isl/ git clean -f build/pkgs/lcalc/patches/ git clean -f build/pkgs/polylib/ and now 'git pull' is up to date. This is all very strange. On Sunday, November 25, 2018 at 9:41:58 PM UTC-6, Samuel Lelievre wrote: > > > As far as I can recall 'git pull' was always done as a normal user. > > Note the timestamp on the folders, which predates 8.5.beta4. > > And this issue did not manifest itself then. But going forward, > > how to correct things? > > Change to your SAGE_ROOT directory and run this as a normal user > > $ sudo chown -v -R $(id -u):$(id -g) . > > to set the owner and group of SAGE_ROOT (and recursively all > the included files and directories) to your user and your group. > -- You received this message because you are subscribed to the Google Groups "sage-release" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-release+unsubscr...@googlegroups.com. To post to this group, send email to sage-release@googlegroups.com. Visit this group at https://groups.google.com/group/sage-release. For more options, visit https://groups.google.com/d/optout.
Re: [sage-release] Re: Sage 8.5.beta5 released
> As far as I can recall 'git pull' was always done as a normal user. > Note the timestamp on the folders, which predates 8.5.beta4. > And this issue did not manifest itself then. But going forward, > how to correct things? Change to your SAGE_ROOT directory and run this as a normal user $ sudo chown -v -R $(id -u):$(id -g) . to set the owner and group of SAGE_ROOT (and recursively all the included files and directories) to your user and your group. -- You received this message because you are subscribed to the Google Groups "sage-release" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-release+unsubscr...@googlegroups.com. To post to this group, send email to sage-release@googlegroups.com. Visit this group at https://groups.google.com/group/sage-release. For more options, visit https://groups.google.com/d/optout.
