error building gap_packages

[John Cremona]

I successfully built 10.6 from scratch on 5 different machines (all
ubuntu), then (as is my usual practice) did "make gap_packages". This
worked on all but one machine where I see this, of which the relevant
line seems to be "UnicodeDecodeError: 'utf8' codec can't decode byte
0x8b in position 8: invalid start byte". I did check that the file
libsemigroups-2.7.3.tar.gz was the same as on a machine which worked.

Any ideas? The log is attached as well as what I have pasted in here.

John

make[1]: Entering directory '/usr/local/sage/sage-10.6/build/make'
make --no-print-directory libsemigroups-SAGE_LOCAL-no-deps
[libsemigroups-2.7.3] Using cached file
/usr/local/sage/sage-10.6/upstream/libsemigroups-2.7.3.tar.gz
[libsemigroups-2.7.3] Setting up build directory
/usr/local/sage/sage-10.6/local/var/tmp/sage/build/libsemigroups-2.7.3
[libsemigroups-2.7.3] Traceback (most recent call last):
[libsemigroups-2.7.3] File
"/usr/local/sage/sage-10.6/build/bin/sage-uncompress-spkg", line 23,
in <module>
[libsemigroups-2.7.3] run()
[libsemigroups-2.7.3] File
"/usr/local/sage/sage-10.6/build/bin/../sage_bootstrap/uncompress/cmdline.py",
line 67, in run
[libsemigroups-2.7.3] unpack_archive(archive, dirname)
[libsemigroups-2.7.3] File
"/usr/local/sage/sage-10.6/build/bin/../sage_bootstrap/uncompress/action.py",
line 48, in unpack_archive
[libsemigroups-2.7.3] for member in archive.names:
[libsemigroups-2.7.3] File
"/usr/local/sage/sage-10.6/build/bin/../sage_bootstrap/uncompress/tar_file.py",
line 70, in names
[libsemigroups-2.7.3] return filter_os_files(self.getnames())
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1846, in
getnames
[libsemigroups-2.7.3] return [tarinfo.name for tarinfo in self.getmembers()]
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1838, in
getmembers
[libsemigroups-2.7.3] self._load() # all members, we first have to
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 2419, in _load
[libsemigroups-2.7.3] tarinfo = self.next()
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 2358, in next
[libsemigroups-2.7.3] tarinfo = self.tarinfo.fromtarfile(self)
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1254, in
fromtarfile
[libsemigroups-2.7.3] return obj._proc_member(tarfile)
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1276, in
_proc_member
[libsemigroups-2.7.3] return self._proc_pax(tarfile)
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1406, in
_proc_pax
[libsemigroups-2.7.3] value = value.decode("utf8")
[libsemigroups-2.7.3] File
"/usr/local/anaconda2/lib/python2.7/encodings/utf_8.py", line 16, in
decode
[libsemigroups-2.7.3] return codecs.utf_8_decode(input, errors, True)
[libsemigroups-2.7.3] UnicodeDecodeError: 'utf8' codec can't decode
byte 0x8b in position 8: invalid start byte
[libsemigroups-2.7.3]
************************************************************************
[libsemigroups-2.7.3] Error: failed to extract
/usr/local/sage/sage-10.6/upstream/libsemigroups-2.7.3.tar.gz
[libsemigroups-2.7.3]
************************************************************************
[libsemigroups-2.7.3] Please email sage-devel
(http://groups.google.com/group/sage-devel)
[libsemigroups-2.7.3] explaining the problem and including the log files
[libsemigroups-2.7.3]
/usr/local/sage/sage-10.6/logs/pkgs/libsemigroups-2.7.3.log
[libsemigroups-2.7.3] and
[libsemigroups-2.7.3] /usr/local/sage/sage-10.6/config.log
[libsemigroups-2.7.3] Describe your computer, operating system, etc.
[libsemigroups-2.7.3]
************************************************************************
make[2]: *** [Makefile:3412: libsemigroups-SAGE_LOCAL-no-deps] Error 1
make[1]: *** [Makefile:3412:
/usr/local/sage/sage-10.6/local/var/lib/sage/installed/libsemigroups-2.7.3]
Error 2
make[1]: Leaving directory '/usr/local/sage/sage-10.6/build/make'
***************************************************************
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make gap_packages'):

* package: libsemigroups-2.7.3
last build time: Apr 2 09:26
log file: /usr/local/sage/sage-10.6/logs/pkgs/libsemigroups-2.7.3.log
build directory:
/usr/local/sage/sage-10.6/local/var/tmp/sage/build/libsemigroups-2.7.3

[Dima Pasechnik]

On Wed, Apr 2, 2025 at 3:33 AM John Cremona <john.c...@gmail.com> wrote:
>
> I successfully built 10.6 from scratch on 5 different machines (all
> ubuntu), then (as is my usual practice) did "make gap_packages". This
> worked on all but one machine where I see this, of which the relevant
> line seems to be "UnicodeDecodeError: 'utf8' codec can't decode byte
> 0x8b in position 8: invalid start byte". I did check that the file
> libsemigroups-2.7.3.tar.gz was the same as on a machine which worked.
>
> Any ideas? The log is attached as well as what I have pasted in here.

"/usr/local/anaconda2/lib/python2.7/tarfile.py", line 1838,

Python2.7 Conda leftovers in your PATH there, it seems

Dima

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[John Cremona]

Thanks Dima.  Helpful as always!

Funny, I don't remember ever having installed or used anaconda, but at the end of my .bashrc I see two lines "added by Anaconda2 installer" and adding /usr/local/anaconda2/bin to my PATH.

So I removed those lines, started a new shell and now gap_packages installed normally.