Nicholas Cooley
| Snapshot Date: 2024-11-20 13:40 -0500 (Wed, 20 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/SynExtend |
| git_branch: devel |
| git_last_commit: 88b8d0f |
| git_last_commit_date: 2024-10-29 10:46:40 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-21 11:33 -0500 (Thu, 21 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4742 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4456 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 2087/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SynExtend 1.19.0 (landing page) Nicholas Cooley
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the SynExtend package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SynExtend.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: SynExtend |
| Version: 1.19.0 |
| Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL SynExtend |
| StartedAt: 2024-11-20 15:12:42 -0500 (Wed, 20 Nov 2024) |
| EndedAt: 2024-11-20 15:12:43 -0500 (Wed, 20 Nov 2024) |
| EllapsedTime: 0.8 seconds |
| RetCode: 1 |
| Status: ERROR |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL SynExtend
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘SynExtend’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using Fortran compiler: ‘GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/usr/local/include -DSTRICT_R_HEADERS=1 -fopenmp -fpic -g -O2 -Wall -c CDend.c -o CDend.o
CDend.c: In function ‘RFDist’:
CDend.c:265:29: warning: implicit declaration of function ‘Calloc’; did you mean ‘calloc’? [-Wimplicit-function-declaration]
265 | unsigned int *allHashed = Calloc(numLabels, unsigned int);
| ^~~~~~
| calloc
CDend.c:265:47: error: expected expression before ‘unsigned’
265 | unsigned int *allHashed = Calloc(numLabels, unsigned int);
| ^~~~~~~~
CDend.c:273:38: error: expected expression before ‘ulong’
273 | ulong *keyvals = Calloc(numLabels, ulong);
| ^~~~~
CDend.c:274:29: error: expected expression before ‘ulong’
274 | ulong *ht1 = Calloc(t1pl, ulong);
| ^~~~~
CDend.c:275:29: error: expected expression before ‘ulong’
275 | ulong *ht2 = Calloc(t2pl, ulong);
| ^~~~~
CDend.c:290:3: warning: implicit declaration of function ‘Free’; did you mean ‘free’? [-Wimplicit-function-declaration]
290 | Free(allHashed);
| ^~~~
| free
CDend.c:294:34: error: expected expression before ‘int’
294 | int *idxToKeep1 = Calloc(t1pl, int);
| ^~~
CDend.c:295:34: error: expected expression before ‘int’
295 | int *idxToKeep2 = Calloc(t2pl, int);
| ^~~
CDend.c: In function ‘KFDist’:
CDend.c:374:47: error: expected expression before ‘unsigned’
374 | unsigned int *allHashed = Calloc(numLabels, unsigned int);
| ^~~~~~~~
CDend.c:382:38: error: expected expression before ‘ulong’
382 | ulong *keyvals = Calloc(numLabels, ulong);
| ^~~~~
CDend.c:383:29: error: expected expression before ‘ulong’
383 | ulong *ht1 = Calloc(t1pl, ulong);
| ^~~~~
CDend.c:384:29: error: expected expression before ‘ulong’
384 | ulong *ht2 = Calloc(t2pl, ulong);
| ^~~~~
CDend.c:385:35: error: expected expression before ‘double’
385 | double *dists1 = Calloc(t1pl+2, double);
| ^~~~~~
CDend.c:386:35: error: expected expression before ‘double’
386 | double *dists2 = Calloc(t2pl+2, double);
| ^~~~~~
CDend.c:412:34: error: expected expression before ‘int’
412 | int *idxToKeep1 = Calloc(t1pl, int);
| ^~~
CDend.c:413:34: error: expected expression before ‘int’
413 | int *idxToKeep2 = Calloc(t2pl, int);
| ^~~
CDend.c: In function ‘calcDValue’:
CDend.c:496:42: error: expected expression before ‘double’
496 | double *scores = Calloc(head->value+1, double);
| ^~~~~~
CDend.c: In function ‘calcDBrownValue’:
CDend.c:576:42: error: expected expression before ‘unsigned’
576 | unsigned int *labs = Calloc(numLabels, unsigned int);
| ^~~~~~~~
CDend.c: In function ‘allocTreeNode’:
CDend.c:1237:33: error: expected expression before ‘treeNode’
1237 | treeNode *newNode = Calloc(1, treeNode);
| ^~~~~~~~
make: *** [/home/biocbuild/bbs-3.21-bioc/R/etc/Makeconf:195: CDend.o] Error 1
ERROR: compilation failed for package ‘SynExtend’
* removing ‘/home/biocbuild/bbs-3.21-bioc/R/site-library/SynExtend’
* restoring previous ‘/home/biocbuild/bbs-3.21-bioc/R/site-library/SynExtend’