Gentoo Archives: gentoo-user

From: karl@××××××××.se
To: gentoo-user@l.g.o
Subject: [gentoo-user] emerge failure for dev-lang/R-4.0.4
Date: Sat, 03 Apr 2021 11:15:48
Message-Id: 20210403111539.9787C8246B5B@turkos.aspodata.se
1 Is there a way to run emerge step by step to find out why it fails ?
2
3 ///
4
5 I get this:
6 make[1]: Entering directory '/Net/gentoo/tmpdir/portage/dev-lang/R-4.0.4/work/R-4.0.4/doc'
7 make[1]: Leaving directory '/Net/gentoo/tmpdir/portage/dev-lang/R-4.0.4/work/R-4.0.4'
8 help2man: can't get `--version' info from ../bin/R
9 make[1]: *** [Makefile:46: R.1] Error 255
10 make[1]: *** Waiting for unfinished jobs....
11 Error: package or namespace load failed for ?<80><98>methods?<80><99>:
12 .onLoad failed in loadNamespace() for 'methods', details:
13 call: (function (n)
14 error: lazy-load database '/Net/gentoo/tmpdir/portage/dev-lang/R-4.0.4/work/R-4.0.4/library/methods/R/methods.rdb' is corrupt
15 During startup - Warning messages:
16 1: In (function (n) : internal error -4 in R_decompress1
17 2: package "methods" in options("defaultPackages") was not found
18 make[1]: Leaving directory '/Net/gentoo/tmpdir/portage/dev-lang/R-4.0.4/work/R-4.0.4/doc'
19
20 but ../bin/R --version works:
21 # cd /Net/gentoo/tmpdir/portage/dev-lang/R-4.0.4/work/R-4.0.4/doc
22 # ../bin/R --version
23 WARNING: ignoring environment value of R_HOME
24 R version 4.0.4 (2021-02-15) -- "Lost Library Book"
25 Copyright (C) 2021 The R Foundation for Statistical Computing
26 Platform: x86_64-pc-linux-gnu (64-bit)
27
28 R is free software and comes with ABSOLUTELY NO WARRANTY.
29 You are welcome to redistribute it under the terms of the
30 GNU General Public License versions 2 or 3.
31 For more information about these matters see
32 https://www.gnu.org/licenses/.
33
34 #
35
36 ///
37
38 I also get segfault:
39 begin installing recommended package MASS
40 begin installing recommended package lattice
41 Segmentation fault
42 make[2]: *** [Makefile:53: MASS.ts] Error 1
43 make[2]: *** Waiting for unfinished jobs....
44 * installing *source* package ?<80><98>codetools?<80><99> ...
45 ** package ?<80><98>codetools?<80><99> successfully unpacked and MD5 sums checked
46 ** using non-staged installation
47
48 ///
49
50 Full build log is here:
51 http://aspodata.se/tmp/build.log
52
53 Regards,
54 /Karl Hammar

Replies

Subject Author
Re: [gentoo-user] emerge failure for dev-lang/R-4.0.4 Jack <ostroffjh@×××××××××××××××××.net>
Re: [gentoo-user] emerge failure for dev-lang/R-4.0.4 Michael Orlitzky <mjo@g.o>