[R] Make sure winbuilder tests pass for package #21496
Description
Current submission to winbuilder triggers the following errors:
* using log directory 'd:/RCompile/CRANguest/R-release/arrow.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'arrow/DESCRIPTION' ... OK
* this is package 'arrow' version '0.12.0.9000'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Javier Luraschi <javier@rstudio.com>'
New submission
Version contains large components (0.12.0.9000)
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
.travis.yml
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
CRAN-pack does not know about
.travis.yml
* checking for portable file names ... OK
* checking whether package 'arrow' can be installed ... OK
* checking installed package size ... NOTE
installed size is 8.6Mb
sub-directories of 1Mb or more:
R 1.9Mb
libs 6.5Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
Non-standard file/directory found at top level:
'clang_format.sh'
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
** checking use of S3 registration ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
** checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [8s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compiled code ... OK
* checking examples ...
** running examples for arch 'i386' ... [1s] OK
** running examples for arch 'x64' ... [1s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ... [7s] ERROR
Running 'testthat.R' [6s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # Licensed to the Apache Software Foundation (ASF) under one
> # or more contributor license agreements. See the NOTICE file
> # distributed with this work for additional information
> # regarding copyright ownership. The ASF licenses this file
> # to you under the Apache License, Version 2.0 (the
> # "License"); you may not use this file except in compliance
> # with the License. You may obtain a copy of the License at
> #
> # http://www.apache.org/licenses/LICENSE-2.0
> #
> # Unless required by applicable law or agreed to in writing,
> # software distributed under the License is distributed on an
> # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
> # KIND, either express or implied. See the License for the
> # specific language governing permissions and limitations
> # under the License.
>
> library(testthat)
> library(arrow)
Attaching package: 'arrow'
The following object is masked from 'package:utils':
timestamp
The following objects are masked from 'package:base':
array, table
> library(tibble)
>
> test_check("arrow")
-- 1. Error: read_table handles various input streams (ARROW-3450, ARROW-3505) (
could not find function "defer"
1: local_tempfile() at testthat/test-Table.R:28
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 2. Error: Can read csv file (@test-arrow-csv-.R#21) ------------------------
could not find function "defer"
1: local_tempfile() at testthat/test-arrow-csv-.R:21
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 3. Error: feather read/write round trip (@test-feather.R#23) ---------------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:23
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 4. Error: feather handles columns = <names> (@test-feather.R#63) -----------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:63
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 5. Error: feather handles columns = <integer> (@test-feather.R#76) ---------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:76
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 6. Error: feather read/write round trip (@test-feather.R#89) ---------------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:89
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 7. Error: arrow::table round trip (@test-read-write.R#87) ------------------
could not find function "defer"
1: local_tempfile() at testthat/test-read-write.R:87
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 8. Error: arrow::table round trip handles NA in integer and numeric (@test-re
could not find function "defer"
1: local_tempfile() at testthat/test-read-write.R:117
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 9. Error: RecordBatchFileWriter / RecordBatchFileReader roundtrips (@test-rea
could not find function "defer"
1: local_tempfile() at testthat/test-read_record_batch.R:26
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 10. Error: read_record_batch() handles (raw|Buffer|InputStream, Schema) (ARRO
could not find function "defer"
1: read_record_batch(raw, schema) at testthat/test-read_record_batch.R:54
2: read_record_batch.raw(raw, schema)
3: close_on_exit(BufferReader(obj))
4: defer_parent(x$close(), ...)
5: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
6: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 11. Error: read_record_batch() can handle (Message, Schema) parameters (ARROW
could not find function "defer"
1: close_on_exit(BufferReader(raw)) at testthat/test-read_record_batch.R:68
2: defer_parent(x$close(), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
== testthat results ===========================================================
OK: 723 SKIPPED: 2 FAILED: 11
1. Error: read_table handles various input streams (ARROW-3450, ARROW-3505) (@test-Table.R#28)
2. Error: Can read csv file (@test-arrow-csv-.R#21)
3. Error: feather read/write round trip (@test-feather.R#23)
4. Error: feather handles columns = <names> (@test-feather.R#63)
5. Error: feather handles columns = <integer> (@test-feather.R#76)
6. Error: feather read/write round trip (@test-feather.R#89)
7. Error: arrow::table round trip (@test-read-write.R#87)
8. Error: arrow::table round trip handles NA in integer and numeric (@test-read-write.R#117)
9. Error: RecordBatchFileWriter / RecordBatchFileReader roundtrips (@test-read_record_batch.R#26)
1. ...
Error: testthat unit tests failed
Execution halted
** running tests for arch 'x64' ... [7s] ERROR
Running 'testthat.R' [7s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # Licensed to the Apache Software Foundation (ASF) under one
> # or more contributor license agreements. See the NOTICE file
> # distributed with this work for additional information
> # regarding copyright ownership. The ASF licenses this file
> # to you under the Apache License, Version 2.0 (the
> # "License"); you may not use this file except in compliance
> # with the License. You may obtain a copy of the License at
> #
> # http://www.apache.org/licenses/LICENSE-2.0
> #
> # Unless required by applicable law or agreed to in writing,
> # software distributed under the License is distributed on an
> # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
> # KIND, either express or implied. See the License for the
> # specific language governing permissions and limitations
> # under the License.
>
> library(testthat)
> library(arrow)
Attaching package: 'arrow'
The following object is masked from 'package:utils':
timestamp
The following objects are masked from 'package:base':
array, table
> library(tibble)
>
> test_check("arrow")
-- 1. Error: read_table handles various input streams (ARROW-3450, ARROW-3505) (
could not find function "defer"
1: local_tempfile() at testthat/test-Table.R:28
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 2. Error: Can read csv file (@test-arrow-csv-.R#21) ------------------------
could not find function "defer"
1: local_tempfile() at testthat/test-arrow-csv-.R:21
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 3. Error: feather read/write round trip (@test-feather.R#23) ---------------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:23
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 4. Error: feather handles columns = <names> (@test-feather.R#63) -----------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:63
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 5. Error: feather handles columns = <integer> (@test-feather.R#76) ---------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:76
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 6. Error: feather read/write round trip (@test-feather.R#89) ---------------
could not find function "defer"
1: local_tempfile() at testthat/test-feather.R:89
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 7. Error: arrow::table round trip (@test-read-write.R#87) ------------------
could not find function "defer"
1: local_tempfile() at testthat/test-read-write.R:87
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 8. Error: arrow::table round trip handles NA in integer and numeric (@test-re
could not find function "defer"
1: local_tempfile() at testthat/test-read-write.R:117
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 9. Error: RecordBatchFileWriter / RecordBatchFileReader roundtrips (@test-rea
could not find function "defer"
1: local_tempfile() at testthat/test-read_record_batch.R:26
2: defer_parent(unlink(tf), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 10. Error: read_record_batch() handles (raw|Buffer|InputStream, Schema) (ARRO
could not find function "defer"
1: read_record_batch(raw, schema) at testthat/test-read_record_batch.R:54
2: read_record_batch.raw(raw, schema)
3: close_on_exit(BufferReader(obj))
4: defer_parent(x$close(), ...)
5: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
6: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
-- 11. Error: read_record_batch() can handle (Message, Schema) parameters (ARROW
could not find function "defer"
1: close_on_exit(BufferReader(raw)) at testthat/test-read_record_batch.R:68
2: defer_parent(x$close(), ...)
3: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
4: eval(substitute(defer(expr, envir, priority), list(expr = substitute(expr), envir = parent.frame(2),
priority = priority)), envir = parent.frame())
== testthat results ===========================================================
OK: 723 SKIPPED: 2 FAILED: 11
1. Error: read_table handles various input streams (ARROW-3450, ARROW-3505) (@test-Table.R#28)
2. Error: Can read csv file (@test-arrow-csv-.R#21)
3. Error: feather read/write round trip (@test-feather.R#23)
4. Error: feather handles columns = <names> (@test-feather.R#63)
5. Error: feather handles columns = <integer> (@test-feather.R#76)
6. Error: feather read/write round trip (@test-feather.R#89)
7. Error: arrow::table round trip (@test-read-write.R#87)
8. Error: arrow::table round trip handles NA in integer and numeric (@test-read-write.R#117)
9. Error: RecordBatchFileWriter / RecordBatchFileReader roundtrips (@test-read_record_batch.R#26)
1. ...
Error: testthat unit tests failed
Execution halted
* checking PDF version of manual ... OK
* DONE
Status: 2 ERRORs, 4 NOTEsReporter: Javier Luraschi / @javierluraschi
Assignee: Javier Luraschi / @javierluraschi
Related issues:
- [R] Enable package to be made available on CRAN (is depended upon by)
PRs and other links:
Note: This issue was originally created as ARROW-4995. Please see the migration documentation for further details.