#1011012 tiledb-r FTBFS with tiledb 2.8.3

Package:
src:tiledb-r
Source:
tiledb-r
Submitter:
Adrian Bunk
Date:
2022-05-15 13:57:03 UTC
Severity:
serious
Tags:
#1011012#5
Date:
2022-05-15 10:38:35 UTC
From:
To:
https://buildd.debian.org/status/logs.php?pkg=tiledb-r&ver=0.12.0-1%2Bb1

...
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -I/usr/include/tiledb -I'/usr/lib/R/site-library/Rcpp/include'    -fpic  -g -O2 -ffile-prefix-map=/build/r-base-eH67wr/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c libtiledb.cpp -o libtiledb.o
libtiledb.cpp: In function ‘Rcpp::XPtr<tiledb::Group> libtiledb_group(Rcpp::XPtr<tiledb::Context>, const string&, const string&)’:
libtiledb.cpp:4401:47: error: no matching function for call to ‘tiledb::Group::Group()’
 4401 |     XPtr<tiledb::Group> ptr(new tiledb::Group()); // placeholder
      |                                               ^
In file included from /usr/include/tiledb/tiledb_experimental:37,
                 from ../inst/include/tiledb.h:7,
                 from libtiledb.h:27,
                 from libtiledb.cpp:23:
/usr/include/tiledb/group_experimental.h:73:3: note: candidate: ‘tiledb::Group::Group(tiledb::Group&&)’
   73 |   Group(Group&&) = default;
      |   ^~~~~
/usr/include/tiledb/group_experimental.h:73:3: note:   candidate expects 1 argument, 0 provided
/usr/include/tiledb/group_experimental.h:72:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Group&)’
   72 |   Group(const Group&) = default;
      |   ^~~~~
/usr/include/tiledb/group_experimental.h:72:3: note:   candidate expects 1 argument, 0 provided
/usr/include/tiledb/group_experimental.h:60:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Context&, const string&, tiledb_query_type_t)’
   60 |   Group(
      |   ^~~~~
/usr/include/tiledb/group_experimental.h:60:3: note:   candidate expects 3 arguments, 0 provided
make[2]: *** [/usr/lib/R/etc/Makeconf:177: libtiledb.o] Error 1
#1011012#10
Date:
2022-05-15 12:52:18 UTC
From:
To:
Adrian,

On 15 May 2022 at 13:38, Adrian Bunk wrote:
| Source: tiledb-r
| Version: 0.12.0-1
| Severity: serious
| Tags: ftbfs
|
| https://buildd.debian.org/status/logs.php?pkg=tiledb-r&ver=0.12.0-1%2Bb1
|
| ...
| g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -I/usr/include/tiledb -I'/usr/lib/R/site-library/Rcpp/include'    -fpic  -g -O2 -ffile-prefix-map=/build/r-base-eH67wr/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c libtiledb.cpp -o libtiledb.o
| libtiledb.cpp: In function ‘Rcpp::XPtr<tiledb::Group> libtiledb_group(Rcpp::XPtr<tiledb::Context>, const string&, const string&)’:
| libtiledb.cpp:4401:47: error: no matching function for call to ‘tiledb::Group::Group()’
|  4401 |     XPtr<tiledb::Group> ptr(new tiledb::Group()); // placeholder
|       |                                               ^
| In file included from /usr/include/tiledb/tiledb_experimental:37,
|                  from ../inst/include/tiledb.h:7,
|                  from libtiledb.h:27,
|                  from libtiledb.cpp:23:
| /usr/include/tiledb/group_experimental.h:73:3: note: candidate: ‘tiledb::Group::Group(tiledb::Group&&)’
|    73 |   Group(Group&&) = default;
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:73:3: note:   candidate expects 1 argument, 0 provided
| /usr/include/tiledb/group_experimental.h:72:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Group&)’
|    72 |   Group(const Group&) = default;
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:72:3: note:   candidate expects 1 argument, 0 provided
| /usr/include/tiledb/group_experimental.h:60:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Context&, const string&, tiledb_query_type_t)’
|    60 |   Group(
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:60:3: note:   candidate expects 3 arguments, 0 provided
| make[2]: *** [/usr/lib/R/etc/Makeconf:177: libtiledb.o] Error 1

I know -- it also happend a few days to CRAN which uses Debian testing on one box.

This is temporary. I work at TileDB, and we had a lot of upstream work going
on with the 'dev', 2.7 and 2.8 branches that made me accientally use and
'equal to 2.8.0' test where 'equal or greater to 2.8.0' would have avoided
this.

We just release 2.9.0 so this is a little moot anyway but I think I will just
do a quick fix while working on some CMake changes I need to make for the
2.9.0 package.

Dirk
#1011012#15
Date:
2022-05-15 12:52:18 UTC
From:
To:
Adrian,

On 15 May 2022 at 13:38, Adrian Bunk wrote:
| Source: tiledb-r
| Version: 0.12.0-1
| Severity: serious
| Tags: ftbfs
|
| https://buildd.debian.org/status/logs.php?pkg=tiledb-r&ver=0.12.0-1%2Bb1
|
| ...
| g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -I/usr/include/tiledb -I'/usr/lib/R/site-library/Rcpp/include'    -fpic  -g -O2 -ffile-prefix-map=/build/r-base-eH67wr/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c libtiledb.cpp -o libtiledb.o
| libtiledb.cpp: In function ‘Rcpp::XPtr<tiledb::Group> libtiledb_group(Rcpp::XPtr<tiledb::Context>, const string&, const string&)’:
| libtiledb.cpp:4401:47: error: no matching function for call to ‘tiledb::Group::Group()’
|  4401 |     XPtr<tiledb::Group> ptr(new tiledb::Group()); // placeholder
|       |                                               ^
| In file included from /usr/include/tiledb/tiledb_experimental:37,
|                  from ../inst/include/tiledb.h:7,
|                  from libtiledb.h:27,
|                  from libtiledb.cpp:23:
| /usr/include/tiledb/group_experimental.h:73:3: note: candidate: ‘tiledb::Group::Group(tiledb::Group&&)’
|    73 |   Group(Group&&) = default;
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:73:3: note:   candidate expects 1 argument, 0 provided
| /usr/include/tiledb/group_experimental.h:72:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Group&)’
|    72 |   Group(const Group&) = default;
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:72:3: note:   candidate expects 1 argument, 0 provided
| /usr/include/tiledb/group_experimental.h:60:3: note: candidate: ‘tiledb::Group::Group(const tiledb::Context&, const string&, tiledb_query_type_t)’
|    60 |   Group(
|       |   ^~~~~
| /usr/include/tiledb/group_experimental.h:60:3: note:   candidate expects 3 arguments, 0 provided
| make[2]: *** [/usr/lib/R/etc/Makeconf:177: libtiledb.o] Error 1

I know -- it also happend a few days to CRAN which uses Debian testing on one box.

This is temporary. I work at TileDB, and we had a lot of upstream work going
on with the 'dev', 2.7 and 2.8 branches that made me accientally use and
'equal to 2.8.0' test where 'equal or greater to 2.8.0' would have avoided
this.

We just release 2.9.0 so this is a little moot anyway but I think I will just
do a quick fix while working on some CMake changes I need to make for the
2.9.0 package.

Dirk
#1011012#20
Date:
2022-05-15 13:52:56 UTC
From:
To:
We believe that the bug you reported is fixed in the latest version of
tiledb-r, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 1011012@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Dirk Eddelbuettel <edd@debian.org> (supplier of updated tiledb-r package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmaster@ftp-master.debian.org)
Format: 1.8
Date: Sun, 15 May 2022 08:18:54 -0500
Source: tiledb-r
Architecture: source
Version: 0.12.0-2
Distribution: unstable
Urgency: medium
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Changed-By: Dirk Eddelbuettel <edd@debian.org>
Closes: 1011012
Changes:
 tiledb-r (0.12.0-2) unstable; urgency=medium
 .
   * debian/patches/: Relax constraints for '>= 2.8.0 && < 2.9.0' which was
     needed briefly upstream and is now a blocker (Closes: #1011012)
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Files:
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