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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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 Posted: Wed Oct 07, 2015 5:27 pm Post subject: Gentoo bootstrap on mac os x failed during stage 3 |
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As the title says, got the following error during bootstrapping stage 3, when compiling perl.
ld: library not found for -lgcc_s.10.4
x86_64-apple-darwin14-clang-3.5.2: error: linker command failed with exit code 1
GNUmakefile:354: recipe for target 'libperl.5.22.0.dylib' failed
System is mac os x 10.10.5 |
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kikko
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Joined: 29 Apr 2014
Posts: 276
Location: Milan, IT
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Thu Oct 08, 2015 6:18 pm Post subject: |
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I was following the General bootstrap process and run
| Code: | | ./bootstrap-prefix.sh |
The error came during stage3 of the bootstrap, when compiling perl. I can provide any logs (stage*.log and perl-5.22.0/temp/build.log) if needed. Meanwhile, I will create this link to that library, as described in that bug report and run it once more...
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Thu Oct 08, 2015 7:49 pm Post subject: |
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Hi kikko,
this time it compiled perl, but I run into another problem:
| Code: | | [blocks B ] <dev-libs/openssl-1.0.2d-r1:0 ("<dev-libs/openssl-1.0.2d-r1:0" is blocking app-misc/c_rehash-1.7-r1) |
I could unblock it with
| Code: | | =app-misc/c_rehash-1.7-r1 ** |
but I assumed that the bootstrap should run smoothly out of box. |
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kikko
Apprentice
Joined: 29 Apr 2014
Posts: 276
Location: Milan, IT
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| Posted: Fri Oct 09, 2015 11:16 am Post subject: |
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Hi marf007
can you please post the whole output?
Thanks  |
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Fri Oct 09, 2015 2:20 pm Post subject: |
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Hi kikko,
that's the output, before that it performed a sync.
I guess it's happened pretty much at the end of stage3.
| Code: | >>> Checking server timestamp ...
Calculating dependencies .... done!
[ebuild NS ] sys-libs/ncurses-5.9-r101 [5.9-r4] USE="cxx unicode (-ada) -debug -doc (-gpm) -minimal -profile -static-libs -tinfo -trace"
[ebuild U ] app-arch/xz-utils-5.2.2 [5.2.1-r1] USE="nls*"
[ebuild U ] sys-devel/gnuconfig-20150727 [20150308]
[ebuild N *] app-misc/c_rehash-1.7-r1
[ebuild N ] app-misc/editor-wrapper-4
[ebuild N ] virtual/shadow-0
[ebuild N ] sys-process/pidof-bsd-20050501-r4
[ebuild N ] sys-apps/which-2.21
[ebuild N ] sys-process/pkill-darwin-1.0
[ebuild N ] app-arch/gzip-1.6 USE="-pic -static"
[ebuild N ] sys-apps/darwin-miscutils-10
[ebuild U ] sys-apps/file-5.24 [5.22] PYTHON_TARGETS="(-pypy)"
[ebuild N ] sys-apps/less-481 USE="unicode -pcre"
[ebuild N ] virtual/service-manager-0 USE="(prefix)"
[ebuild N ] virtual/pager-0
[ebuild N ] sys-apps/diffutils-3.3 USE="nls -static"
[ebuild U ] sys-apps/coreutils-8.24 [8.23-r00.1] USE="nls*"
[ebuild N ] app-editors/nano-2.4.2 USE="magic ncurses nls spell unicode -debug -justify -minimal -slang -static"
[ebuild N ] virtual/editor-0
[ebuild N ] dev-perl/libintl-perl-1.240.0
[ebuild N ] virtual/perl-File-Spec-3.560.0
[ebuild N ] virtual/perl-ExtUtils-MakeMaker-7.40.100_rc
[ebuild N ] dev-perl/Text-Unidecode-1.240.0
[ebuild N ] dev-perl/Unicode-EastAsianWidth-1.330.0-r1
[ebuild N ] sys-apps/debianutils-4.4 USE="-static"
[ebuild N ] sys-apps/texinfo-6.0 USE="nls -static"
[ebuild N ] sys-apps/groff-1.22.3 USE="-X -examples"
[ebuild N ] sys-apps/man-1.6g-r1 USE="lzma nls (-selinux)"
[ebuild N ] virtual/man-0-r1
[ebuild N ] app-misc/ca-certificates-20150426.3.20-r1 USE="cacert"
[ebuild N ] dev-libs/openssl-1.0.2d USE="asm tls-heartbeat zlib -bindist -gmp -kerberos -rfc3779 -sctp -static-libs {-test} -vanilla"
[ebuild N ] net-misc/openssh-6.9_p1-r2 USE="hpn pie ssl -X -X509 -bindist -debug -kerberos -ldap -ldns -libedit (-pam) -sctp (-selinux) -skey -ssh1 -static"
[ebuild U ] net-misc/wget-1.16.3-r2 [1.16.3] USE="nls* ssl* -libressl%"
[ebuild N ] virtual/ssh-0 USE="-minimal"
[ebuild N ] virtual/package-manager-0
[ebuild U ] sys-devel/binutils-apple-6.3 [6.1]
[blocks B ] <dev-libs/openssl-1.0.2d-r1:0 ("<dev-libs/openssl-1.0.2d-r1:0" is blocking app-misc/c_rehash-1.7-r1)
* Error: The above package list contains packages which cannot be
* installed at the same time on the same system.
(dev-libs/openssl-1.0.2d:0/0::gentoo_prefix, ebuild scheduled for merge) pulled in by
>=dev-libs/openssl-0.9.6d:0[bindist=] (>=dev-libs/openssl-0.9.6d:0[-bindist]) required by (net-misc/openssh-6.9_p1-r2:0/0::gentoo_prefix, ebuild scheduled for merge)
dev-libs/openssl:0 required by (net-misc/wget-1.16.3-r2:0/0::gentoo_prefix, ebuild scheduled for merge)
dev-libs/openssl required by (net-misc/openssh-6.9_p1-r2:0/0::gentoo_prefix, ebuild scheduled for merge)
(app-misc/c_rehash-1.7-r1:0/0::gentoo_prefix, ebuild scheduled for merge) pulled in by
>=app-misc/c_rehash-1.7-r1 required by (app-misc/ca-certificates-20150426.3.20-r1:0/0::gentoo_prefix, ebuild scheduled for merge)
For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):
https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages
The following keyword changes are necessary to proceed:
(see "package.accept_keywords" in the portage(5) man page for more details)
# required by app-misc/ca-certificates-20150426.3.20-r1::gentoo_prefix
# required by dev-libs/openssl-1.0.2d::gentoo_prefix
# required by net-misc/wget-1.16.3-r2::gentoo_prefix[ssl,-libressl,-gnutls,-static]
# required by @system
# required by @world (argument)
=app-misc/c_rehash-1.7-r1 **
NOTE: The --autounmask-keep-masks option will prevent emerge
from creating package.unmask or ** keyword changes.
Use --autounmask-write to write changes to config files (honoring
CONFIG_PROTECT). Carefully examine the list of proposed changes,
paying special attention to mask or keyword changes that may expose
experimental or unstable packages.
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kikko
Apprentice
Joined: 29 Apr 2014
Posts: 276
Location: Milan, IT
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| Posted: Sat Oct 10, 2015 9:13 am Post subject: |
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Hi marf007
Your system is trying to emerge OpenSSL v. 1.0.2d, while "app-misc/c_rehash-1.7-r1" requires an higher version, i.e. OpenSSL v. 1.0.2d-r1
| marf007 wrote: | | Code: | [ebuild N ] dev-libs/openssl-1.0.2d USE="asm tls-heartbeat zlib -bindist -gmp -kerberos -rfc3779 -sctp -static-libs {-test} -vanilla"
...
[blocks B ] <dev-libs/openssl-1.0.2d-r1:0 ("<dev-libs/openssl-1.0.2d-r1:0" is blocking app-misc/c_rehash-1.7-r1)
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In my system's tree, that version of "app-misc/c_rehash" is the only one available, so this "reverse dependency" is a constraint for me too (I've tried to downgrade OpenSSL, but I get the same result as yours)
You can try one of the following:
- see if the version dev-libs/openssl-1.0.2d-r1 for your gentoo prefix
| Code: | | emerge -1va =dev-libs/openssl-1.0.2d |
try to mask the versions of app-misc/ca-certificates which is causing the c_rehash to be pulled in (you can see the depgraph https://bpaste.net/show/d81a2d30c1b8)
| Code: | | echo ">app-misc/ca-certificates-20141019.3.19" >> /etc/portage/package.mask |
Last will solve also the manual unmasking of app-misc/c_rehash on your system, which will no longer be needed.
Watch out, since you are running a gentoo prefix:- /etc/portage/ is where your make.conf is also located, not sure where this path is in PREFIX ($EPREFIX/etc/portage maybe?)
- /etc/portage/package.mask could be a directory, in this case you can redirect that echo to a file in that dir
Regards |
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Sat Oct 10, 2015 2:12 pm Post subject: |
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Thanks, kikko.
It worked, but I run into yet another problem. The installation of ncurses-5.9-r101 ends with an error, due to file
collision. See below, I didn't include a list of all files, since it's far too long, seems like every single file which
would be installed is affected.
| Code: | >>> Installing (1 of 35) sys-libs/ncurses-5.9-r101::gentoo_prefix
* This package will overwrite one or more files that may belong to other
* packages (see list below). You can use a command such as `portageq
* owners / <filename>` to identify the installed package that owns a
* file. If portageq reports that only one package owns a file then do
* NOT file a bug report. A bug report is only useful if it identifies at
* least two or more packages that are known to install the same file(s).
* If a collision occurs and you can not explain where the file came from
* then you should simply ignore the collision since there is not enough
* information to determine if a real problem exists. Please do NOT file
* a bug report at http://bugs.gentoo.org unless you report exactly which
* two packages install the same file(s). See
* http://wiki.gentoo.org/wiki/Knowledge_Base:Blockers for tips on how to
* solve the problem. And once again, please do NOT file a bug report
* unless you have completely understood the above message.
*
* package sys-libs/ncurses-5.9-r101 NOT merged
*
* Detected file collision(s):
...
* Searching all installed packages for file collisions...
*
* Press Ctrl-C to Stop
*
* sys-libs/ncurses-5.9-r4:0::gentoo_prefix
* /etc/env.d/50ncurses
* /etc/terminfo/61/ansi
* /etc/terminfo/64/dumb
* /etc/terminfo/6c/linux
* /etc/terminfo/72/rxvt
* /etc/terminfo/72/rxvt-unicode
* /etc/terminfo/73/screen
* /etc/terminfo/73/sun
* /etc/terminfo/76/vt100
* /etc/terminfo/76/vt102
* /etc/terminfo/76/vt220
* /etc/terminfo/76/vt52
* /etc/terminfo/78/xterm
* /etc/terminfo/78/xterm-color
* /etc/terminfo/78/xterm-xfree86
* /usr/bin/clear
* /usr/bin/infocmp
* /usr/bin/ncurses5-config
* /usr/bin/ncursesw5-config
* /usr/bin/tabs
*
* Package 'sys-libs/ncurses-5.9-r101' NOT merged due to file collisions.
* If necessary, refer to your elog messages for the whole content of the
* above message.
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kikko
Apprentice
Joined: 29 Apr 2014
Posts: 276
Location: Milan, IT
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| Posted: Sat Oct 10, 2015 10:16 pm Post subject: |
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Hi marf007
sure you have a real bad luck  sys-libs/ncurses-5.9-r101 and sys-libs/ncurses-5.9-r4 are from 2 different "slots", this means that they can be side by side since they don't interfere each other (in theory)
| Code: |
[I] sys-libs/ncurses
Available versions:
(0) 5.9-r3 (~)5.9-r4 5.9-r5(0/5) (~)6.0-r1(0/6)
(5) 5.9-r99(5/5) (~)5.9-r101(5/5) (~)6.0(5/6)
{ada +cxx debug doc gpm minimal profile static-libs test threads tinfo trace unicode ABI_MIPS="n32 n64 o32" ABI_PPC="32 64" ABI_S390="32 64" ABI_X86="32 64 x32"}
Installed versions: 6.0-r1(11:40:46 12/09/2015)(cxx gpm unicode -ada -debug -doc -minimal -profile -static-libs -test -threads -tinfo -trace ABI_MIPS="-n32 -n64 -o32" ABI_PPC="-32 -64" ABI_S390="-32 -64" ABI_X86="64 -32 -x32")
Homepage: https://www.gnu.org/software/ncurses/ http://dickey.his.com/ncurses/
Description: console display library
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In your case, the "r101" package is trying to overwrite files belonging to the "r4". Having a conflict is very rare, you should file a bug for that IMHO
Anyway, I've tried emerging 6.0 on the side of 6.0-r1 and it doesn't conflicts, you could try unmask those packages and see if you can get over this point
Regards |
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Sun Oct 11, 2015 12:03 pm Post subject: |
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Hi Kikko,
thank you so much for your support. What you suggest worked. But, guess what... I run into another problem, see below.
I thinking of giving up...
Happened after stage3, when I did a
as suggest by the guide
| Code: |
* QA Notice: Found .so dynamic libraries on Darwin:
* Users/marek/Gentoo-2015-10-10/usr/lib/help2man/bindtextdomain.so
* QA Notice: invalid self-reference install_name bindtextdomain.so in /Users/marek/Gentoo-2015-10-10/usr/lib/help2man/bindtextdomain.so
* ERROR: sys-apps/help2man-1.47.2::gentoo_prefix failed:
* invalid install_name found, your application or library will crash at runtime
*
* Call stack:
* misc-functions.sh, line 1225: Called install_qa_check
* misc-functions.sh, line 241: Called install_qa_check_macho
* misc-functions.sh, line 422: Called die
* The specific snippet of code:
* has allow_broken_install_names ${FEATURES} || \
* die "invalid install_name found, your application or library will crash at runtime"
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kikko
Apprentice
Joined: 29 Apr 2014
Posts: 276
Location: Milan, IT
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| Posted: Sun Oct 11, 2015 11:33 pm Post subject: |
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Hi marf007
sure this installation is hard, thus make it to work will be very satisfying 
| Code: | emerge --emptytree (-e)
Reinstalls target atoms and their entire deep dependency tree, as though no packages are currently installed. You should run this with --pretend first to make sure the result is what you expect.
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so you are called to recompile everything, in order to be sure that every piece is in place and works properly
There is a similar issue to yours (related to coreutils, but the message is the same): see this bug for details
You can try to emerge -ep system, and see the package list. You can manually emerge the packages (for example), in order to see if "help2man" is the only one not working
Regards |
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marf007
n00b
Joined: 09 Jun 2015
Posts: 7
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| Posted: Mon Oct 12, 2015 7:28 pm Post subject: |
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Hi Kikko, thanks again.
Since I wanted to update OS X to El Capitan (from Yosemite) anyway, I think I will do an update first, and will wait till a prefix installation for El Capitan is available. Hopefully, it will work better.  |
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Gentoo on Alternative Architectures
