Submission: ReLTER - Githubissues

oggioniale commented 2 years ago

Date accepted: 2022-04-27 Reviewers: Submitting Author Name: Alessandro Oggioni Submitting Author Github Handle: !--author1-->@oggioniale@maurolepore<!--end-editor-- Reviewers: @WillOnGit, @allisonhorst

Due date for @allisonhorst: 2022-03-10 Due date for @WillOnGit: 2022-03-10

Archive: TBD Version accepted: TBD Language: en

Paste the full DESCRIPTION file inside a code block below:

Package: ReLTER
Type: Package
Title: An interface to the eLTER for the R statistical programming environment
Version: 1.0.0
Date: 2021-11-15
Authors@R: c(
        person("Alessandro", "Oggioni", email = "oggioni.a@irea.cnr.it", 
          role = c("aut", "cre", "fnd"),
          comment = c(ORCID = "0000-0002-7997-219X")
        ),
        person("Micha", "Silver", email = "silverm@post.bgu.ac.il",
          role = c("aut", "ctb"),
          comment = c(ORCID = "0000-0002-1128-1325",
          " Micha Silver is a coauthor of functions get_ilter_generalinfo and
          get_site_info for category Boundaries, he develop get_site_ODS
          function and he also is a reviewer of English wording for all
          functions.")
        ),
        person("Paolo", "Tagliolato", email = "tagliolato.a@irea.cnr.it",
          role = c("aut", "ctb"),
          comment = c(ORCID = "0000-0002-0261-313X",
          " Paolo Tagliolato is a coauthor of package, he wrote the function
          do_Q(), on which some ReLTER internal functions are based")
        )
      )
Maintainer: The package maintainer Alessandro Oggioni, phD (2020)
    <oggioniale@gmail.com>
Description: ReLTER is an R package that: provides access to DEIMS-SDR
    (https://deims.org/), allows interact with software implemented by eLTER
    Research Infrastructure (RI) and improves the data/information shared by
    them.
    ReLTER is a R package devoted to access, interact and improve the
    information and the data shared by Long Term Ecological Research (LTER)
    network. This package is born within eLTER H2020 major project that will
    help advance the development of European Long-Term Ecosystem Research
    Infrastructures (eLTER RI - https://elter-ri.eu).
    The ReLTER package functions in particular allow to:
    - retrive the information about entities (e.g. sites, datasets, and
    activities) shared by DEIMS-SDR (see e.g. get_site_info function);
    - interact with the [ODSEurope](maps.opendatascience.eu) managed by members
    of the [Geo-harmonizer](https://opendatascience.eu/geoharmonizer-project/)
    project starting with the dataset shared by [DEIMS-SDR](https://deims.org/)
    (see e.g. [get_site_ODS](https://oggioniale.github.io/ReLTER/reference/get_site_ODS.html)
    function);
    - use the site informations for download data from other platforms (see
    e.g. get_site_ODS function);
    - improve the quality of the dataset (see e.g. get_id_worms).
    Functions currently implemented are derived from the discussion of the
    needs declared by eLTER users community.
    The ReLTER package shall definitely follow the progress of eLTER-RI
    infrastructure and evolving with the improvements and develop of
    new tools.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports:
    dplyr (>= 1.0.0),
    jsonlite (>= 1.7.2),
    sf (>= 0.9-5),
    tibble (>= 3.0.5),
    httr (>= 1.4.2),
    taxize (>= 0.9.97),
    sp (>= 1.4-2),
    rgeos (>= 0.5-3),
    rosm (>= 0.2.5),
    raster (>= 3.3-13),
    terra (>= 1.4-11),
    tmap (>= 3.1),
    grid (>= 3.5.1),
    leaflet (>= 2.0.3),
    qrencoder (>= 0.1.0),
    waffle (>= 0.7.0),
    dtplyr,
    ISOcodes (>= 2021.02.24),
    RColorBrewer (>= 1.1-2),
    ggforce (>= 0.3.2),
    ggplot2 (>= 3.3.5),
    jqr (>= 1.2.0),
    mapview (>= 2.9.0),
    qrcode (>= 0.1.3),
    scales (>= 1.1.1),
    xml2 (>= 1.3.2),
    magrittr (>= 2.0.1),
    stats (>= 4.0.3)
Suggests: 
    testthat (>= 3.0.0),
    knitr,
    rmarkdown
VignetteBuilder: knitr
URL: https://github.com/oggioniale/ReLTER
BugReports: https://github.com/oggioniale/ReLTER/issues
Config/testthat/edition: 3
RoxygenNote: 7.1.2
Language: en-GB

Scope

Please indicate which category or categories from our package fit policies this package falls under: (Please check an appropriate box below. If you are unsure, we suggest you make a pre-submission inquiry.):
- [x] data retrieval
- [ ] data extraction
- [ ] data munging
- [ ] data deposition
- [ ] workflow automation
- [ ] version control
- [ ] citation management and bibliometrics
- [ ] scientific software wrappers
- [ ] field and lab reproducibility tools
- [ ] database software bindings
- [x] geospatial data
- [ ] text analysis
Explain how and why the package falls under these categories (briefly, 1-2 sentences):

ReLTER package devoted to access, interact and improve the information and the data shared on World Wide Web by Long Term Ecological Research (LTER) network. Most of this data has geographic characteristics and the package provides some functions to accessing and manipulating that.

Who is the target audience and what are scientific applications of this package?

The target audience are primarily the site managers, researchers and operators of International Long Term Ecological Research (ILTER) network of networks. Currently, ILTER encompasses 39 national networks which together operate more than 600 sites and more than 1300 involved persons. ILTER's focus is on long-term data series, site-based research and monitoring. ReLTER access, interact and improve the information and the data shared by European Long-Term Ecosystem Research Infrastructures (eLTER RI) trough web services and APIs. The target audience in perspective, since ReLTER relates to the data and information released by the largest network dedicated to ecological research, will be all users who need to work on ecology and environmental scientific area.

Are there other R packages that accomplish the same thing? If so, how does yours differ or meet our criteria for best-in-category?

To the our knowledge there aren't currently R packages that accomplish the same thing of ReLTER. MetaEgress and rOpenSci popler packages are developed for same community but none of them have aims comparable with ReLTER.

(If applicable) Does your package comply with our guidance around Ethics, Data Privacy and Human Subjects Research?

N/A

If you made a pre-submission inquiry, please paste the link to the corresponding issue, forum post, or other discussion, or @tag the editor you contacted.

N/A

Technical checks

Confirm each of the following by checking the box.

[x] I have read the guide for authors and rOpenSci packaging guide.

This package:

[x] does not violate the Terms of Service of any service it interacts with.
[x] has a CRAN and OSI accepted license.
[x] contains a README with instructions for installing the development version.
[x] includes documentation with examples for all functions, created with roxygen2.
[x] contains a vignette with examples of its essential functions and uses.
[x] has a test suite.
[x] has continuous integration, including reporting of test coverage using services such as Travis CI, Coveralls and/or CodeCov.

Publication options

[x] Do you intend for this package to go on CRAN?
[ ] Do you intend for this package to go on Bioconductor?
[ ] Do you wish to submit an Applications Article about your package to Methods in Ecology and Evolution? If so:

MEE Options

- [ ] The package is novel and will be of interest to the broad readership of the journal. - [ ] The manuscript describing the package is no longer than 3000 words. - [ ] You intend to archive the code for the package in a long-term repository which meets the requirements of the journal (see [MEE's Policy on Publishing Code](http://besjournals.onlinelibrary.wiley.com/hub/journal/10.1111/(ISSN)2041-210X/journal-resources/policy-on-publishing-code.html)) - (*Scope: Do consider MEE's [Aims and Scope](http://besjournals.onlinelibrary.wiley.com/hub/journal/10.1111/(ISSN)2041-210X/aims-and-scope/read-full-aims-and-scope.html) for your manuscript. We make no guarantee that your manuscript will be within MEE scope.*) - (*Although not required, we strongly recommend having a full manuscript prepared when you submit here.*) - (*Please do not submit your package separately to Methods in Ecology and Evolution*)

Code of conduct

[x] I agree to abide by rOpenSci's Code of Conduct during the review process and in maintaining my package should it be accepted.

ropensci-review-bot commented 2 years ago

Thanks for submitting to rOpenSci, our editors and @ropensci-review-bot will reply soon. Type @ropensci-review-bot help for help.

ropensci-review-bot commented 2 years ago

:rocket:

Editor check started

:wave:

ropensci-review-bot commented 2 years ago

Checks for ReLTER (v1.0.0)

git hash: 70bbcbd8

:heavy_check_mark: Package name is available
:heavy_check_mark: has a 'CITATION' file.
:heavy_check_mark: has a 'codemeta.json' file.
:heavy_multiplication_x: does not have a 'contributing' file.
:heavy_check_mark: uses 'roxygen2'.
:heavy_check_mark: 'DESCRIPTION' has a URL field.
:heavy_check_mark: 'DESCRIPTION' has a BugReports field.
:heavy_check_mark: Package has at least one HTML vignette
:heavy_check_mark: All functions have examples.
:heavy_check_mark: Package has continuous integration checks.
:heavy_multiplication_x: Package coverage failed
:heavy_multiplication_x: R CMD check found 1error.
:heavy_check_mark: R CMD check found no warnings.

Important: All failing checks above must be addressed prior to proceeding

Package License: GPL-3

1. Statistical Properties

This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.

Details of statistical properties (click to open)

The package has: - code in R (100% in 33 files) and - 3 authors - 1 vignette - 1 internal data file - 28 imported packages - 32 exported functions (median 29 lines of code) - 34 non-exported functions in R (median 48 lines of code) --- Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages The following terminology is used: - `loc` = "Lines of Code" - `fn` = "function" - `exp`/`not_exp` = exported / not exported The final measure (`fn_call_network_size`) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile. |measure | value| percentile|noteworthy | |:-----------------------|-----:|----------:|:----------| |files_R | 33| 90.2| | |files_vignettes | 0| 0.0|TRUE | |files_tests | 28| 97.1| | |loc_R | 1945| 82.9| | |loc_tests | 1135| 86.2| | |num_vignettes | 1| 60.7| | |data_size_total | 4946| 66.8| | |data_size_median | 4946| 74.4| | |n_fns_r | 66| 57.8| | |n_fns_r_exported | 32| 78.5| | |n_fns_r_not_exported | 34| 46.7| | |n_fns_per_file_r | 1| 0.0|TRUE | |num_params_per_fn | 1| 1.1|TRUE | |loc_per_fn_r | 39| 91.2| | |loc_per_fn_r_exp | 29| 63.5| | |loc_per_fn_r_not_exp | 48| 94.9| | |rel_whitespace_R | 1| 13.2| | |rel_whitespace_tests | 19| 94.1| | |doclines_per_fn_exp | 25| 23.1| | |doclines_per_fn_not_exp | 0| 0.0|TRUE | |fn_call_network_size | 26| 46.2| | ---

1a. Network visualisation

Click to see the interactive network visualisation of calls between objects in package

2. `goodpractice` and other checks

Details of goodpractice and other checks (click to open)

#### 3a. Continuous Integration Badges [![github](https://img.shields.io/github/languages/code-size/oggioniale/ReLTER.svg)](https://github.com/oggioniale/ReLTER/actions) [![github](https://img.shields.io/github/last-commit/oggioniale/ReLTER.svg)](https://github.com/oggioniale/ReLTER/actions) --- #### 3b. `goodpractice` results #### `R CMD check` with [rcmdcheck](https://r-lib.github.io/rcmdcheck/) R CMD check generated the following error: 1. checking package dependencies ... ERROR Namespace dependencies missing from DESCRIPTION Imports/Depends entries: 'stringr', 'worrms' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. R CMD check generated the following check_fails: 1. no_description_date 2. no_import_package_as_a_whole 3. rcmdcheck_package_dependencies_present #### Test coverage with [covr](https://covr.r-lib.org/) ERROR: Test Coverage Failed #### Cyclocomplexity with [cyclocomp](https://github.com/MangoTheCat/cyclocomp) No functions have cyclocomplexity >= 15 #### Static code analyses with [lintr](https://github.com/jimhester/lintr) [lintr](https://github.com/jimhester/lintr) found the following 299 potential issues: message | number of times --- | --- Avoid 1:length(...) expressions, use seq_len. | 3 Avoid 1:nrow(...) expressions, use seq_len. | 2 Avoid library() and require() calls in packages | 1 Avoid using sapply, consider vapply instead, that's type safe | 1 Lines should not be more than 80 characters. | 290 Use <-, not =, for assignment. | 2

Package Versions

|package |version | |:--------|:---------| |pkgstats |0.0.2.72 | |pkgcheck |0.0.2.107 |

Editor-in-Chief Instructions:

Processing may not proceed until the items marked with :heavy_multiplication_x: have been resolved.

micha-silver commented 2 years ago

I put a CONTRIBUTING.md file into the dev branch. It's just a template that was suggested on the rOpenSci page, and I edited it so the URL to your github was correct.

ldecicco-USGS commented 2 years ago

@ropensci-review-bot check package

ropensci-review-bot commented 2 years ago

Thanks, about to send the query.

ropensci-review-bot commented 2 years ago

:rocket:

Editor check started

:wave:

ropensci-review-bot commented 2 years ago

Checks for ReLTER (v1.0.0)

git hash: 1308bb74

:heavy_check_mark: Package name is available
:heavy_check_mark: has a 'CITATION' file.
:heavy_check_mark: has a 'codemeta.json' file.
:heavy_check_mark: has a 'contributing' file.
:heavy_check_mark: uses 'roxygen2'.
:heavy_check_mark: 'DESCRIPTION' has a URL field.
:heavy_check_mark: 'DESCRIPTION' has a BugReports field.
:heavy_check_mark: Package has at least one HTML vignette
:heavy_check_mark: All functions have examples.
:heavy_check_mark: Package has continuous integration checks.
:heavy_multiplication_x: Package coverage failed
:heavy_multiplication_x: R CMD check found 1error.
:heavy_check_mark: R CMD check found no warnings.

Important: All failing checks above must be addressed prior to proceeding

Package License: GPL-3

1. Statistical Properties

This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.

Details of statistical properties (click to open)

The package has: - code in R (100% in 33 files) and - 3 authors - 1 vignette - 1 internal data file - 28 imported packages - 32 exported functions (median 29 lines of code) - 34 non-exported functions in R (median 48 lines of code) --- Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages The following terminology is used: - `loc` = "Lines of Code" - `fn` = "function" - `exp`/`not_exp` = exported / not exported The final measure (`fn_call_network_size`) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile. |measure | value| percentile|noteworthy | |:-----------------------|-----:|----------:|:----------| |files_R | 33| 90.2| | |files_vignettes | 0| 0.0|TRUE | |files_tests | 28| 97.1| | |loc_R | 1945| 82.9| | |loc_tests | 1135| 86.2| | |num_vignettes | 1| 60.7| | |data_size_total | 4946| 66.8| | |data_size_median | 4946| 74.4| | |n_fns_r | 66| 57.8| | |n_fns_r_exported | 32| 78.5| | |n_fns_r_not_exported | 34| 46.7| | |n_fns_per_file_r | 1| 0.0|TRUE | |num_params_per_fn | 1| 1.1|TRUE | |loc_per_fn_r | 39| 91.2| | |loc_per_fn_r_exp | 29| 63.5| | |loc_per_fn_r_not_exp | 48| 94.9| | |rel_whitespace_R | 1| 13.2| | |rel_whitespace_tests | 19| 94.1| | |doclines_per_fn_exp | 25| 23.1| | |doclines_per_fn_not_exp | 0| 0.0|TRUE | |fn_call_network_size | 26| 46.2| | ---

1a. Network visualisation

Click to see the interactive network visualisation of calls between objects in package

2. `goodpractice` and other checks

Details of goodpractice and other checks (click to open)

#### 3a. Continuous Integration Badges [![github](https://img.shields.io/github/languages/code-size/oggioniale/ReLTER.svg)](https://github.com/oggioniale/ReLTER/actions) [![github](https://img.shields.io/github/last-commit/oggioniale/ReLTER.svg)](https://github.com/oggioniale/ReLTER/actions) --- #### 3b. `goodpractice` results #### `R CMD check` with [rcmdcheck](https://r-lib.github.io/rcmdcheck/) R CMD check generated the following error: 1. checking package dependencies ... ERROR Namespace dependencies missing from DESCRIPTION Imports/Depends entries: 'stringr', 'worrms' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. R CMD check generated the following check_fails: 1. no_description_date 2. no_import_package_as_a_whole 3. rcmdcheck_package_dependencies_present #### Test coverage with [covr](https://covr.r-lib.org/) ERROR: Test Coverage Failed #### Cyclocomplexity with [cyclocomp](https://github.com/MangoTheCat/cyclocomp) No functions have cyclocomplexity >= 15 #### Static code analyses with [lintr](https://github.com/jimhester/lintr) [lintr](https://github.com/jimhester/lintr) found the following 299 potential issues: message | number of times --- | --- Avoid 1:length(...) expressions, use seq_len. | 3 Avoid 1:nrow(...) expressions, use seq_len. | 2 Avoid library() and require() calls in packages | 1 Avoid using sapply, consider vapply instead, that's type safe | 1 Lines should not be more than 80 characters. | 290 Use <-, not =, for assignment. | 2

Package Versions

|package |version | |:--------|:---------| |pkgstats |0.0.2.72 | |pkgcheck |0.0.2.107 |

Editor-in-Chief Instructions:

Processing may not proceed until the items marked with :heavy_multiplication_x: have been resolved.

ldecicco-USGS commented 2 years ago

Hi @oggioniale ! Thanks for the submission. Once you've made appropriate changes, can you run pkgcheck::pkgcheck() yourself and confirm the summary at the top (or result of summary() applied to check results) gives all ✔️ and no ✖️? It should also confirm, "This package may be submitted." Thanks!

Similarly, if you want to look at the goodpractice output, you can run that locally with goodpractice::gp()

Once you've done that, let me know and I'll re-check the package here.

From a rOpenSci-fit perspective, I think this package looks good to proceed to a review. I'll begin looking around for an editor.

oggioniale commented 2 years ago

Hi @ldecicco-USGS! Sorry for the delay. We are working to fix all the items with ✖️. We are taking a few more hours to complete the various checks. Thank you

ldecicco-USGS commented 2 years ago

@ropensci-review-bot assign @maurolepore as editor

ropensci-review-bot commented 2 years ago

Assigned! @maurolepore is now the editor

maurolepore commented 2 years ago

Hello @oggioniale, it's my pleasure to be the editor of this submission. I'll start working on this now. Expect some comments within the next couple of days.

oggioniale commented 2 years ago

Dear @maurolepore, we finish the check of the package following the suggestions and using the goodpractice::gp(). After this, now the response is "Wee! Fabulous package! Keep up the incredible work!" So now the package may be submitted.

Regards Ale

maurolepore commented 2 years ago

@ropensci-review-bot check package

ropensci-review-bot commented 2 years ago

Thanks, about to send the query.

ropensci-review-bot commented 2 years ago

Error (500). The editorcheck service is currently unavailable

mpadge commented 2 years ago

sorry @maurolepore just working on that - it'll be back up soon, and checks will appear here. @oggioniale note you can and should run these checks locally with pkgcheck::pkgcheck() to confirm "this package may be submitted" prior to proceeding further.

maurolepore commented 2 years ago

Thanks @mpadge! I believe @oggioniale diligently did run pkgcheck::pkcheck() locally. My call to the bot was just to confirm and leave a formal record here.

ropensci-review-bot commented 2 years ago

Checks for ReLTER (v1.0.0)

git hash: 05a95228

:heavy_check_mark: Package name is available
:heavy_check_mark: has a 'CITATION' file.
:heavy_check_mark: has a 'codemeta.json' file.
:heavy_check_mark: has a 'contributing' file.
:heavy_check_mark: uses 'roxygen2'.
:heavy_check_mark: 'DESCRIPTION' has a URL field.
:heavy_check_mark: 'DESCRIPTION' has a BugReports field.
:heavy_check_mark: Package has at least one HTML vignette
:heavy_check_mark: All functions have examples.
:heavy_multiplication_x: Package has no continuous integration checks.
:heavy_multiplication_x: Package coverage failed
:heavy_multiplication_x: R CMD check process failed with message: 'Build process failed'.

Important: All failing checks above must be addressed prior to proceeding

Package License: GPL-3 + file LICENSE

1. Statistical Properties

This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.

Details of statistical properties (click to open)

The package has: - code in R (100% in 34 files) and - 3 authors - 1 vignette - no internal data file - 29 imported packages - 32 exported functions (median 29 lines of code) - 34 non-exported functions in R (median 50 lines of code) --- Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages The following terminology is used: - `loc` = "Lines of Code" - `fn` = "function" - `exp`/`not_exp` = exported / not exported The final measure (`fn_call_network_size`) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile. |measure | value| percentile|noteworthy | |:------------------------|-----:|----------:|:----------| |files_R | 34| 90.7| | |files_vignettes | 1| 64.8| | |files_tests | 26| 96.7| | |loc_R | 2055| 83.9| | |loc_vignettes | 48| 32.4| | |loc_tests | 1271| 87.5| | |num_vignettes | 1| 60.7| | |n_fns_r | 66| 57.8| | |n_fns_r_exported | 32| 78.5| | |n_fns_r_not_exported | 34| 46.7| | |n_fns_per_file_r | 1| 0.0|TRUE | |num_params_per_fn | 1| 1.1|TRUE | |loc_per_fn_r | 41| 92.0| | |loc_per_fn_r_exp | 29| 63.5| | |loc_per_fn_r_not_exp | 50| 95.3|TRUE | |rel_whitespace_R | 0| 2.2|TRUE | |rel_whitespace_vignettes | 46| 69.6| | |rel_whitespace_tests | 14| 92.9| | |doclines_per_fn_exp | 27| 26.9| | |doclines_per_fn_not_exp | 0| 0.0|TRUE | |fn_call_network_size | 26| 46.2| | ---

1a. Network visualisation

Click to see the interactive network visualisation of calls between objects in package

2. `goodpractice` and other checks

Details of goodpractice and other checks (click to open)

--- #### 3b. `goodpractice` results #### `R CMD check` with [rcmdcheck](https://r-lib.github.io/rcmdcheck/) R CMD check generated the following error: 1. Error in proc$get_built_file() : Build process failed #### Test coverage with [covr](https://covr.r-lib.org/) ERROR: Test Coverage Failed #### Cyclocomplexity with [cyclocomp](https://github.com/MangoTheCat/cyclocomp) Error : Build failed, unknown error, standard output: [33m* checking for file ‘ReLTER/DESCRIPTION’ ... OK * preparing ‘ReLTER’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes ----------------------------------- * installing *source* package ‘ReLTER’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Error: object ‘ISO_3166_1’ is not exported by 'namespace:ISOcodes' Execution halted ERROR: lazy loading failed for package ‘ReLTER’ * removing ‘/tmp/RtmpMYcQ99/Rinstb1b785ed12a/ReLTER’ ----------------------------------- ERROR: package installation failed [39m #### Static code analyses with [lintr](https://github.com/jimhester/lintr) [lintr](https://github.com/jimhester/lintr) found no issues with this package!

3. Other Checks

:heavy_check_mark: Package contains the following (potentially) obsolete packages:

rgeos

See our Recommended Scaffolding for alternatives.

Package Versions

|package |version | |:--------|:---------| |pkgstats |0.0.3.52 | |pkgcheck |0.0.2.185 |

Editor-in-Chief Instructions:

Processing may not proceed until the items marked with :heavy_multiplication_x: have been resolved.

mpadge commented 2 years ago

@oggioniale @maurolepore Our system has been updated a bit since the initial checks. You'll notice it now reports:

:heavy_multiplication_x: Package has no continuous integration checks.

This is true, and the previous reports which gave a :heavy_check_mark: for that were inaccurate. Details of the build failure can be seen in the goodpractice and other checks section.

maurolepore commented 2 years ago

@oggioniale I'm working on a comment that I'll post soon with advice including how to add CI. You may want to wait a bit.

oggioniale commented 2 years ago

@maurolepore :-) I wait your comment.

maurolepore commented 2 years ago

Dear @oggioniale,

Thanks again for this submission and for you latest improvements. Soon I'll search for two reviewers that will help you make this package even better, but first I would like to note some issues I see.

All issues are numbered in case you need to refer to them in your response. Some issues have a check-box -- please address them as soon as possible; I'll search for reviewers once they have been resolved. The remaining issues with no check-box are important but not urgent.

Technical checks

Please ensure you can check all boxes under "Technical checks". I see two missing checks:

[x] (01) LICENCE: In DESCRIPTION I see "License: GPL-3". Please run usethis::use_gpl3_license(), commit any change, then check this box.
[x] (02) Continuous Integration (CI): You can add a standard CI workflow with usethis::use_github_action_check_standard(). If the standard workflow doesn't cover the version of R you declare in the field "Depends:" of DESCRIPTION, then you need a fuller CI workflow. You may run instead usethis::use_github_action("check-full.yaml") and remove the checks for versions of R that are older than the one this package supports.

Installation and R CMD check

[ ] (03) Please ensure the package installs correctly on a fresh R environment (e.g. on a new project on https://rstudio.cloud) and passes R CMD check cleanly.
I fail to install the package on my computer:

> devtools::install_github("oggioniale/ReLTER")
Downloading GitHub repo oggioniale/ReLTER@HEAD
✓  checking for file ‘/tmp/Rtmpwupekz/remotes260a10984a29/oggioniale-ReLTER-05a9522/DESCRIPTION’ ...
─  preparing ‘ReLTER’:
✓  checking DESCRIPTION meta-information ...
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
   Omitted ‘LazyData’ from DESCRIPTION
─  building ‘ReLTER_1.0.0.tar.gz’

Installing package into ‘/home/mauro/R/x86_64-pc-linux-gnu-library/4.1’
(as ‘lib’ is unspecified)
* installing *source* package ‘ReLTER’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error: object ‘ISO_3166_1’ is not exported by 'namespace:ISOcodes'
Execution halted
ERROR: lazy loading failed for package ‘ReLTER’
* removing ‘/home/mauro/R/x86_64-pc-linux-gnu-library/4.1/ReLTER’
...

The bot reports R CMD check process failed with message: 'Build process failed'. It also reports Package coverage failed but this may be because the package can't be installed so please first address the issues with installation and R CMD check.

DESCRIPTION

[x] (04) Please review the grammar of the documentation, specially DESCRIPTION because CRAN inspects it carefully. Having a grammatically correct and clear documentation will help the reviewers better understand what this package does, and eventually will also help the users. I'm not a native English speaker, and the reviewers might not either. If you can, please find a native speaker in your network. Even if you are a native English speaker, it usually helps to get feedback from someone with fresh eyes.
[x] (05) Please correct the letter case of the title. CRAN enforces the use of title case. You may use tools::toTitleCase().
[x] (06) Please shorten the title to 65 characters or less. CRAN has rejected packages based on this. Consider removing the phrase "for the R statistical programming environment"; it uses 45 characters and CRAN may consider it is redundant. For example use "An Interface to the European Long-Term Ecosystem Research".

See: https://github.com/DavisVaughan/extrachecks

(07) Under "Authors@R:", the second element of the comment (after the ORCID) might be hard to maintain. If you change the name of a function you may forget to update the name here. Instead you may use the tag @author in the help file of the relevant functions, but just adding the name of an author in DESCRIPTION may be enough.
(08) Under "Imports:", I see most dependencies require a specific version. This may make the package harder to maintain and install. For example note that ggplot2 requires specific versions of only a few of all its dependencies: https://github.com/tidyverse/ggplot2/blob/main/DESCRIPTION.

Non-standard files and directories

(09) Do you need README.html? Usually README.Rmd and README.md are enough.
(10) Do you need these directories?: R_newFunctions/, figure/, miscellaneous/, xslt/. They play no role in the installed R package and may confuse the reviewers.

oggioniale commented 2 years ago

Dear @maurolepore, I checked step by step the issues.

[x] (01) issue solved by commit fe3cb18
[x] (02) by the use of usethis::use_github_action("check-standard") following the suggestion of GitHub Actions for the R language page issue solved by committ 2ef2a55

[x] (03) after rcmdcheck::rcmdcheck(".") the result is:

# ── R CMD check results ──────── ReLTER 1.0.0 ────
# Duration: 5m 44.3s
# 
# 0 errors ✓ | 0 warnings ✓ | 0 notes ✓

issue solved by commit e4da87c and commit 51dc729

[x] (04) English revision of the Description has done by @micha-silver issue solved by commit a92127e
[x] (05) issue solved by commit a92127e
[x] (06) changed the title as suggestion "Title: An R interface for the eLTER community" issue solved by commit e4da87c
[x] (07) issue solved by commit d409e7
[ ] (08) we work on that in the next few hours
[x] (09) issue solved by commit cac8273 and commit e4da87c
[x] (10) I deleted R_newFunctions/, figure/ and miscellaneous/ folders, I maintained the xslt/ folder because is used in the package. issue solved by commit 228318b, commit 7cae772 and commit 3ee51f9

maurolepore commented 2 years ago

@ropensci-review-bot check package

ropensci-review-bot commented 2 years ago

Thanks, about to send the query.

ropensci-review-bot commented 2 years ago

:rocket:

Editor check started

:wave:

ropensci-review-bot commented 2 years ago

Checks for ReLTER (v1.0.0)

git hash: ae61c31b

:heavy_check_mark: Package name is available
:heavy_check_mark: has a 'CITATION' file.
:heavy_check_mark: has a 'codemeta.json' file.
:heavy_check_mark: has a 'contributing' file.
:heavy_check_mark: uses 'roxygen2'.
:heavy_check_mark: 'DESCRIPTION' has a URL field.
:heavy_check_mark: 'DESCRIPTION' has a BugReports field.
:heavy_check_mark: Package has at least one HTML vignette
:heavy_check_mark: All functions have examples.
:heavy_check_mark: Package has continuous integration checks.
:heavy_multiplication_x: Package coverage failed
:heavy_multiplication_x: R CMD check found 1error.
:heavy_check_mark: R CMD check found no warnings.

Important: All failing checks above must be addressed prior to proceeding

Package License: GPL (>= 3)

1. Statistical Properties

This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.

Details of statistical properties (click to open)

The package has: - code in R (100% in 35 files) and - 3 authors - 1 vignette - no internal data file - 30 imported packages - 32 exported functions (median 29 lines of code) - 34 non-exported functions in R (median 48 lines of code) --- Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages The following terminology is used: - `loc` = "Lines of Code" - `fn` = "function" - `exp`/`not_exp` = exported / not exported The final measure (`fn_call_network_size`) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile. |measure | value| percentile|noteworthy | |:------------------------|-----:|----------:|:----------| |files_R | 35| 91.1| | |files_vignettes | 1| 64.8| | |files_tests | 26| 96.7| | |loc_R | 2047| 83.8| | |loc_vignettes | 48| 32.4| | |loc_tests | 1261| 87.3| | |num_vignettes | 1| 60.7| | |n_fns_r | 66| 57.8| | |n_fns_r_exported | 32| 78.5| | |n_fns_r_not_exported | 34| 46.7| | |n_fns_per_file_r | 1| 0.0|TRUE | |num_params_per_fn | 1| 1.1|TRUE | |loc_per_fn_r | 41| 92.0| | |loc_per_fn_r_exp | 29| 63.5| | |loc_per_fn_r_not_exp | 48| 94.9| | |rel_whitespace_R | 0| 2.2|TRUE | |rel_whitespace_vignettes | 46| 69.6| | |rel_whitespace_tests | 14| 92.9| | |doclines_per_fn_exp | 27| 26.9| | |doclines_per_fn_not_exp | 0| 0.0|TRUE | |fn_call_network_size | 26| 46.2| | ---

1a. Network visualisation

Click to see the interactive network visualisation of calls between objects in package

2. `goodpractice` and other checks

Details of goodpractice and other checks (click to open)

#### 3a. Continuous Integration Badges [![https\:\/\/github](https://github.com/oggioniale/ReLTER/workflows/R-CMD-check/badge.svg)](https\:\/\/github) **GitHub Workflow Results** |name |conclusion |sha |date | |:-----------|:----------|:------|:----------| |R-CMD-check |failure |ae61c3 |2021-12-03 | --- #### 3b. `goodpractice` results #### `R CMD check` with [rcmdcheck](https://r-lib.github.io/rcmdcheck/) R CMD check generated the following error: 1. checking tests ... Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: █ 1. ├─testthat::expect_error(...) test-produce_site_parameters_waffle.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) [ FAIL 46 | WARN 4 | SKIP 1 | PASS 329 ] Error: Test failures Execution halted R CMD check generated the following notes: 1. checking for hidden files and directories ... NOTE Found the following hidden files and directories: .github These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. 2. checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file. R CMD check generated the following test_fail: 1. > library(testthat) > library(ReLTER) ReLTER is specially drafted for the LTER community. To contribute to the improvement of this package, join the group of developers (https://github.com/oggioniale/ReLTER). If you use this package, please cite as: Alessandro Oggioni, Micha Silver & Paolo Tagliolato. (2021). oggioniale/ReLTER: ReLTER v1.0.0 (1.0.0). Zenodo. https://doi.org/10.5281/zenodo.5576813 'citation('ReLTER')'. > > test_check("ReLTER") ---- Test get_activity_info() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- Test get_dataset_info() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Dataset.iD ---- NULL Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Dataset.iD ---- NULL Found 1 records... Imported 1 records. Simplifying... ---- Test get_ilter_envcharacts() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The `sitesNum` value must be a double (e.g. 10, 24, etc.). Please check again the value of `sitesNum`. ---- ---- Test get_ilter_generalinfo() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... 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Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... 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Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. 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Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The map cannot be created because one or more site locations provided in DEIMS-SDR, has an invalid geometry. Please check the content and refer this error to DEIMS-SDR support. ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- Test get_ilter_parameters() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The `sitesNum` value must be a double (e.g. 10, 24, etc.). Please check again the value of `sitesNum`. ---- ---- Test get_ilter_research_topics() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The `sitesNum` value must be a double (e.g. 10, 24, etc.). Please check again the value of `sitesNum`. ---- ---- Test get_network_envcharacts() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Network.iD ---- ---- The requested page could not be found. Please check again the Network.iD ---- ---- Test get_network_parameters() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Network.iD ---- ---- The requested page could not be found. Please check again the Network.iD ---- ---- Test get_network_related_resources() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Network.iD ---- ---- The requested page could not be found. Please check again the Network.iD ---- ---- Test get_network_research_topics() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the Network.iD ---- ---- The requested page could not be found. Please check again the Network.iD ---- ---- Test get_network_sites() ---- ---- The requested page could not be found. Please check again the Network.iD ---- ---- Test get_site_affiliations() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_boundaries() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found.Please check the DEIMS ID ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found.Please check the DEIMS ID ---- ---- Test get_site_contact() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_envcharacts() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_general() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_infrastructure() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_ODS() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... [1] "No boundary for requested DEIMS site." Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- =====|====|====|====|====|====|====|====|====|==== -------------------------------------------------- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- Test get_site_parameters() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- ---- Test get_site_related_resources() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test get_site_research_topics() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test produce_network_points_map() ---- No encoding supplied: defaulting to UTF-8. trying URL 'https://biogeo.ucdavis.edu/data/gadm3.6/Rsp/gadm36_DEU_0_sp.rds' Content type 'text/html; charset=iso-8859-1' length 686950 bytes (670 KB) ================================================== downloaded 670 KB No encoding supplied: defaulting to UTF-8. ---- The requested page could not be found. Please check again the Network.iD ---- No encoding supplied: defaulting to UTF-8. ---- The requested page could not be found. Please check again the Network.iD ---- No encoding supplied: defaulting to UTF-8. ---- The map of site cannot be made properly. Please check again the Country code. Compare the code provided with the list of code in Wikipage https://en.wikipedia.org/wiki/ISO_3166 ---- No encoding supplied: defaulting to UTF-8. ---- The requested page could not be found. Please check again the Network.iD ---- No encoding supplied: defaulting to UTF-8. ---- The requested page could not be found. Please check again the Network.iD ---- No encoding supplied: defaulting to UTF-8. ---- Test produce_site_parameters_pie() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test produce_site_parameters_waffle() ---- Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- ---- The requested page could not be found. Please check again the DEIMS.iD ---- Found 1 records... Imported 1 records. Simplifying... ---- The requested page could not be found. Please check the DEIMS ID ---- ---- The requested page could not be found. Please check again the DEIMS.iD ---- ---- Test produce_site_qrcode() ---- ══ Skipped tests ═══════════════════════════════════════════════════════════════ • empty test (1) ══ Warnings ════════════════════════════════════════════════════════════════════ ── Warning (test-get_ilter_generalinfo.R:52:3): Wrong input (not a character) of 'site_name', but correct input of 'country_name'', constructs an empty tibble ── You have provided a site name ('123') that's not among the sites stored in the DEIMS-SDR. The result of this function will be all sites in the requested country ('Austri') not a specific site. Please review what you entered in 'site_name'. Backtrace: 1. ReLTER::get_ilter_generalinfo(country_name = "Austri", site_name = "123") test-get_ilter_generalinfo.R:52:2 ── Warning (test-get_ilter_generalinfo.R:87:3): Output of function constructs 'sf' with valid geometries ── Unknown or uninitialised column: `coordinates`. Backtrace: 1. sf::st_is_valid(result$coordinates) test-get_ilter_generalinfo.R:87:2 3. tibble:::`$.tbl_df`(result, coordinates) ── Warning (test-get_network_related_resources.R:32:3): Output of network related resources function constructs 'tibble' as expected ── Unknown or uninitialised column: `relatedResourcesId`. Backtrace: 1. testthat::expect_type(result$relatedResourcesId, "list") test-get_network_related_resources.R:32:2 5. tibble:::`$.tbl_df`(result, relatedResourcesId) ── Warning (test-get_site_ODS.R:35:11): Function correctly returns NULL for site with no boundary ── ---- This site does not have boundaries uploaded to DEIMS-SDR.Please verify in the site page (https://deims.org/8a313716-ceed-4f41-8b0b-a8197bfc304a) ---- Backtrace: 1. ReLTER::get_site_ODS(deimsid = deimsids[id]) test-get_site_ODS.R:35:10 2. ReLTER::get_site_info(deimsid, category = "Boundaries") 3. ReLTER::get_site_boundaries(deimsid = deimsid) ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error (test-get_activity_info.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_activity_info.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_dataset_info.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_dataset_info.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_ilter_envcharacts.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_ilter_envcharacts.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Failure (test-get_ilter_envcharacts.R:54:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.precipitation.annual has type 'double', not 'integer'. ── Failure (test-get_ilter_envcharacts.R:55:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.precipitation.min has type 'double', not 'integer'. ── Failure (test-get_ilter_envcharacts.R:56:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.precipitation.max has type 'double', not 'integer'. ── Failure (test-get_ilter_envcharacts.R:62:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.landforms has type 'logical', not 'character'. ── Failure (test-get_ilter_envcharacts.R:63:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.geoBonBiome has type 'list', not 'character'. ── Failure (test-get_ilter_envcharacts.R:64:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.geology has type 'logical', not 'character'. ── Failure (test-get_ilter_envcharacts.R:65:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.hydrology has type 'logical', not 'character'. ── Failure (test-get_ilter_envcharacts.R:66:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.soils has type 'logical', not 'character'. ── Failure (test-get_ilter_envcharacts.R:67:3): Output of ILTER environmental characteristics function constructs ‘tibble’ as expected ── result$envCharacteristics.vegetation has type 'logical', not 'character'. ── Error (test-get_ilter_generalinfo.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_ilter_generalinfo.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Failure (test-get_ilter_generalinfo.R:69:3): Wrong input (not a character) of 'site_name', but correct input of 'country_name'', constructs an empty tibble ── result$geoElev.avg has type 'integer', not 'double'. ── Failure (test-get_ilter_generalinfo.R:70:3): Wrong input (not a character) of 'site_name', but correct input of 'country_name'', constructs an empty tibble ── result$geoElev.min has type 'integer', not 'double'. ── Failure (test-get_ilter_generalinfo.R:71:3): Wrong input (not a character) of 'site_name', but correct input of 'country_name'', constructs an empty tibble ── result$geoElev.max has type 'integer', not 'double'. ── Error (test-get_ilter_generalinfo.R:87:3): Output of function constructs 'sf' with valid geometries ── Error in `UseMethod("st_is_valid")`: no applicable method for 'st_is_valid' applied to an object of class "NULL" Backtrace: █ 1. └─sf::st_is_valid(result$coordinates) test-get_ilter_generalinfo.R:87:2 ── Error (test-get_ilter_parameters.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_ilter_parameters.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_ilter_research_topics.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_ilter_research_topics.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_network_envcharacts.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_network_envcharacts.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Failure (test-get_network_envcharacts.R:53:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$geoElev.max has type 'integer', not 'double'. ── Failure (test-get_network_envcharacts.R:63:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$envCharacteristics.precipitation.annual has type 'double', not 'integer'. ── Failure (test-get_network_envcharacts.R:64:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$envCharacteristics.precipitation.min has type 'double', not 'integer'. ── Failure (test-get_network_envcharacts.R:65:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$envCharacteristics.precipitation.max has type 'double', not 'integer'. ── Failure (test-get_network_envcharacts.R:71:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$envCharacteristics.landforms has type 'list', not 'character'. ── Failure (test-get_network_envcharacts.R:72:3): Output of network environmental characteristics function constructs 'tibble' as expected ── result$envCharacteristics.geoBonBiome has type 'list', not 'character'. ── Error (test-get_network_parameters.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_network_parameters.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_network_related_resources.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_network_related_resources.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Failure (test-get_network_related_resources.R:29:3): Output of network related resources function constructs 'tibble' as expected ── all(...) is not TRUE `actual`: FALSE `expected`: TRUE ── Failure (test-get_network_related_resources.R:32:3): Output of network related resources function constructs 'tibble' as expected ── result$relatedResourcesId has type 'NULL', not 'list'. ── Error (test-get_network_research_topics.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_network_research_topics.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_network_sites.R:8:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_network_sites.R:8:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_network_sites.R:47:3): Wrong input (not URL) constructs an empty tibble ── Error in `ReLTER::get_network_sites(activityid = "ljhnhbkihubib")`: unused argument (activityid = "ljhnhbkihubib") ── Error (test-get_site_affiliations.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_affiliations.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_boundaries.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_boundaries.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_contact.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_contact.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_envcharacts.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_envcharacts.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_general.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_general.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_infrastructure.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_infrastructure.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_ODS.R:5:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_ODS.R:5:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_parameters.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_parameters.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_related_resources.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_related_resources.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-get_site_research_topics.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-get_site_research_topics.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-produce_network_points_map.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-produce_network_points_map.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-produce_site_parameters_pie.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-produce_site_parameters_pie.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) ── Error (test-produce_site_parameters_waffle.R:6:3): Expect error if internet connection is down ── Error in `loadNamespace(x)`: there is no package called 'httptest' Backtrace: █ 1. ├─testthat::expect_error(...) test-produce_site_parameters_waffle.R:6:2 2. │ └─testthat:::expect_condition_matching(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat:::.capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─base::loadNamespace(x) 8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL) 9. └─base:::withOneRestart(expr, restarts[[1L]]) 10. └─base:::doWithOneRestart(return(expr), restart) [ FAIL 46 | WARN 4 | SKIP 1 | PASS 329 ] Error: Test failures Execution halted R CMD check generated the following check_fails: 1. no_import_package_as_a_whole 2. rcmdcheck_stale_license_file 3. rcmdcheck_tests_pass 4. rcmdcheck_hidden_files_and_directories #### Test coverage with [covr](https://covr.r-lib.org/) ERROR: Test Coverage Failed #### Cyclocomplexity with [cyclocomp](https://github.com/MangoTheCat/cyclocomp) No functions have cyclocomplexity >= 15 #### Static code analyses with [lintr](https://github.com/jimhester/lintr) [lintr](https://github.com/jimhester/lintr) found no issues with this package!

3. Other Checks

:heavy_check_mark: Package contains the following (potentially) obsolete packages:

rgeos

See our Recommended Scaffolding for alternatives.

Package Versions

|package |version | |:--------|:---------| |pkgstats |0.0.3.54 | |pkgcheck |0.0.2.195 |

Editor-in-Chief Instructions:

Processing may not proceed until the items marked with :heavy_multiplication_x: have been resolved.

maurolepore commented 2 years ago

Thanks @oggioniale!

01 and 02: Thanks! I checked the boxes for license and CI in the section Technical checks at the top. I now see the new file LICENSE -- R CMD check should throw a NOTE because it's a non-standard file. Did you run usethis::use_gpl3_license()? This should add not LICENSE but LICENSE.md and an entry in .Rbuildignore. For example:

> use_gpl3_license()
✔ Setting active project to '/home/mauro/tmp/ReLTER'
✔ Adding '^LICENSE\\.md$' to '.Rbuildignore'

03: Please see the bot checks above under the section 2. goodpractice and other checks > Details of goodpractice and other checks (click to open). Surprisingly, the R CMD check results are different from what you get. See if you can fix the problems. I confirmed the issues in a fresh R environment on https://rstudio.cloud.

```r ... N checking top-level files File LICENSE is not mentioned in the DESCRIPTION file. Non-standard files/directories found at top level: ‘CONTRIBUTING.md’ ‘LICENSE.md’ ‘README.Rmd’ ‘_pkgdown.yaml’ ‘codemeta.json’ ‘docs’ ‘pkgdown’ ‘xslt’ ... W checking for unstated dependencies in ‘tests’ (2.3s) '::' or ':::' import not declared from: ‘httptest’ ... # and more ```

05: I can't find the source now but I think CRAN would want single quotes around 'ReLTER' in your title -- or be safer and spell it out.
06: I'm not sure but it CRAN might also consider redundant the "R" in the title -- so maybe it's safer to use: An Interface for 'eLTER' community

Thanks for considering all other comments too.

oggioniale commented 2 years ago

Hi @maurolepore, please check the package after this commit

[x] 01 - 02 I executed now usethis::use_gpl3_license() (@micha-silver had made the required changes regarding the licence but I corrected them!! Sorry for that!).

[x] 03. We (thank you @micha-silver) changed something and I run again the R CMD check. The result is:


> rcmdcheck::rcmdcheck(".")
── R CMD build ───────────────────────────────────────────────────────────────────────────────────────────────────
✓  checking for file ‘.../DESCRIPTION’ (344ms)
─  preparing ‘ReLTER’: (4.9s)
✓  checking DESCRIPTION meta-information ...
─  installing the package to build vignettes
✓  creating vignettes (58s)
─  checking for LF line-endings in source and make files and shell scripts (830ms)
─  checking for empty or unneeded directories
Removed empty directory ‘ReLTER/tests/testthat/_snaps’
─  building ‘ReLTER_1.0.0.tar.gz’

── R CMD check ─────────────────────────────────────────────────────────────────────────────────────────────────── ─ using log directory ‘/private/var/folders/p1/110rx8q101z0wn0bwh4njrcw0000gn/T/RtmpGxjm5n/file897a4bd54de8/ReLTER.Rcheck’ (443ms) ─ using R version 4.0.3 (2020-10-10) ─ using platform: x86_64-apple-darwin17.0 (64-bit) ─ using session charset: UTF-8 ✓ checking for file ‘ReLTER/DESCRIPTION’ (1.6s) ─ checking extension type ... Package ─ this is package ‘ReLTER’ version ‘1.0.0’ ─ package encoding: UTF-8 ✓ checking package namespace information ✓ checking package dependencies (2.7s) ✓ checking if this is a source package ... ✓ checking if there is a namespace ✓ checking for executable files (2.3s) ✓ checking for hidden files and directories ... ✓ checking for portable file names ... ✓ checking for sufficient/correct file permissions ... ✓ checking whether package ‘ReLTER’ can be installed (34.8s) ✓ checking installed package size ... ✓ checking package directory ✓ checking ‘build’ directory ✓ checking DESCRIPTION meta-information (649ms) ✓ checking top-level files ✓ checking for left-over files ... ✓ checking index information (472ms) ✓ checking package subdirectories (505ms) ✓ checking R files for non-ASCII characters ... ✓ checking R files for syntax errors ... ✓ checking whether the package can be loaded (25.2s) ✓ checking whether the package can be loaded with stated dependencies (24.9s) ✓ checking whether the package can be unloaded cleanly (49.8s) ✓ checking whether the namespace can be loaded with stated dependencies (17.1s) ✓ checking whether the namespace can be unloaded cleanly (9.5s) ✓ checking dependencies in R code (10.5s) ✓ checking S3 generic/method consistency (12.7s) ✓ checking replacement functions (9.4s) ✓ checking foreign function calls (9.9s) ✓ checking R code for possible problems (29.4s) ✓ checking Rd files (1.1s) ✓ checking Rd metadata ... ✓ checking Rd cross-references (496ms) ✓ checking for missing documentation entries (25.1s) ✓ checking for code/documentation mismatches (35.1s) ✓ checking Rd \usage sections (12s) ✓ checking Rd contents ... ✓ checking for unstated dependencies in examples ... ✓ checking R/sysdata.rda (399ms) ✓ checking installed files from ‘inst/doc’ ... ✓ checking files in ‘vignettes’ ✓ checking examples (27s) ✓ checking for unstated dependencies in ‘tests’ ... ─ checking tests (499ms) Registered S3 methods overwritten by 'stars': method from st_bbox.SpatRaster sf
st_crs.SpatRaster sf
✓ Running ‘testthat.R’ (9m 5.7s) ✓ checking for unstated dependencies in vignettes (600ms) ✓ checking package vignettes in ‘inst/doc’ ... ─ checking running R code from vignettes ‘ReLTER.Rmd’ using ‘UTF-8’... OK NONE ✓ checking re-building of vignette outputs (5.5s) ✓ checking PDF version of manual (6.9s)

── R CMD check results ───────────────────────────────────────────────────────────────────────── ReLTER 1.0.0 ──── Duration: 15m 7.7s

0 errors ✓ | 0 warnings ✓ | 0 notes ✓



- [x] 05. Do you mean the single quote around the word eLTER in the title? I do that.
- [x] 06. The title is now: "An Interface for the 'eLTER' Community"

-------

About Continuous Integration (CI) I am reading the errors to see how to solve them.

maurolepore commented 2 years ago

Thanks @oggioniale,

I still see differences between the R CMD check results you share and the ones I get. My priority now is to find a way you can reproduce what I see. This is crucial for you and the reviewers to maintain a productive conversation about your code.

To ensure the differences are not due to different computing environments I suggest we use the exact same computing environment. Here is the rstudio cloud project I used: https://rstudio.cloud/project/3335565. Please create your own copy of this project and keep pulling the latest commits. You can use the terminal tab of that rstudio project -- the remote origin points to your repo (git remote -vv) so you can run git pull. Alternatively you may update R and all packages to the latest version -- which is pretty much what I use all the time.

Right now the HEAD of this repo points to this commit:

6d153e0 (HEAD -> main, origin/main, origin/HEAD) Merge pull request #28 from oggioniale/dev

R CMD check reports one error and three notes. The notes include one about non-standard files/directories which you can fix with usethis::use_build_ignore().

N  checking top-level files
   Non-standard files/directories found at top level:
     ‘CONTRIBUTING.md’ ‘LICENSE.md’ ‘README.Rmd’ ‘_pkgdown.yaml’
     ‘codemeta.json’ ‘docs’ ‘pkgdown’ ‘xslt’

The same you can see on GitHub Actions (CI). Take for example this run on Ubuntu with the release version of R: https://github.com/oggioniale/ReLTER/runs/4431871734?check_suite_focus=true

Tests:

[ FAIL 4 | WARN 2 | SKIP 1 | PASS 323 ]
Error: Error: Test failures
Execution halted

R CMD check:

1 error ✖ | 0 warnings ✔ | 3 notes ✖
Error: Process completed with exit code 1.

Please ensure they all pass cleanly. Let me know if you have questions.

oggioniale commented 2 years ago

Thanks @maurolepore.

As you suggested I'm working on the RStudio Cloud. Actually I'm using Mac OSx and the error is actually on the function get_site_ODS, that I don't have in local environment. This function was created by @micha-silver and I don't have a long experience on the package terra. @micha-silver please can you verify this error on the RStudio Cloud environment.

@micha-silver I checked the get_site_ODSand the error happenes for the site with DEIMS.Id "https://deims.org/79d6c1df-570f-455f-a929-6cfe5c4ca1e9". All the steps in the function are right, but the line: ds_site <- terra::mask(terra::crop(ds, boundary), terra::vect(boundary)) causes the system to crash. Only for that site and not for the others sites in the test.

micha-silver commented 2 years ago

body p { margin-bottom: 0cm; margin-top: 0pt; } 

Here is what I see:

> library(testthat)
    > test_file("tests/testthat/test-get_site_ODS.R")

    ══ Testing test-get_site_ODS.R

═════════════════════════════════════════════════════════════════════════════ [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ] ---- Test get_site_ODS() ---- Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... Imported 1 records. Simplifying... ] Imported 1 records. Simplifying... [ FAIL 0 | WARN 1 | SKIP 0 | PASS 9 ][1] "No boundary for requested DEIMS site." Imported 1 records. Simplifying...0 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...8 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...9 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...0 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...1 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...2 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...3 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...4 ] Imported 1 records. Simplifying... Imported 1 records. Simplifying...5 ] Imported 1 records. Simplifying... [ FAIL 0 | WARN 1 | SKIP 0 | PASS 26 ]

    ── Warning (test-get_site_ODS.R:35:11): Function correctly
    returns NULL for site with no boundary ─────────────────────

    ----
    This site does not have boundaries uploaded to DEIMS-SDR.Please
    verify in the site page
    (https://deims.org/8a313716-ceed-4f41-8b0b-a8197bfc304a)
    ----

    Backtrace:
     1. ReLTER::get_site_ODS(deimsid = deimsids[id])
    test-get_site_ODS.R:35:10
     2. ReLTER::get_site_info(deimsid, category = "Boundaries")
     3. ReLTER::get_site_boundaries(deimsid = deimsid)

    [ FAIL 0 | WARN 1 | SKIP 0 | PASS 26 ]

Looks good to me. The warning is when user enters
    a deimsid for a site that does not have a boundary shapefile.
    Maybe I should change that to just a message??

On 07/12/2021 17:18, Alessandro Oggioni
  wrote:

  Thanks @maurolepore.
  As you suggested I'm working on the (RStudio
    Cloud)[https://rstudio.cloud/project/3335565]. Actually I'm
    using Mac OSx and the error is actually on the function get_site_ODS.
    This function was created by @micha-silver
    and I don't have a long experience on the package terra.
    @micha-silver
    please can you verify this error on the (RStudio
    Cloud)[https://rstudio.cloud/project/3335565] enviroment.
  @micha-silver
    I checked the get_site_ODSand the error happenes
    for the site with DEIMS.Id "https://deims.org/79d6c1df-570f-455f-a929-6cfe5c4ca1e9".
    All the steps in the function are right, but the line:
    ds_site <- terra::mask(terra::crop(ds, boundary),
      terra::vect(boundary))
    causes the system to crash. Only for that site and not for the
    others sites in the test.
  —
    You are receiving this because you were mentioned.
    Reply to this email directly, view it on GitHub, or unsubscribe.
    Triage notifications on the go with GitHub Mobile for iOS or Android.

  [

{ @.": "http://schema.org", @.": "EmailMessage", "potentialAction": { @.": "ViewAction", "target": "https://github.com/ropensci/software-review/issues/485#issuecomment-988023026", "url": "https://github.com/ropensci/software-review/issues/485#issuecomment-988023026", "name": "View Issue" }, "description": "View this Issue on GitHub", "publisher": { @.": "Organization", "name": "GitHub", "url": "https://github.com" } } ]

--

Micha Silver Ben Gurion Univ. Sde Boker, Remote Sensing Lab cell: +972-523-665918 https://orcid.org/0000-0002-1128-1325

oggioniale commented 2 years ago

@micha-silver did you execute this in the RStudio Cloud or whit the R v.4.1.2 in your machine? Because if I execute the R CMD check in local (Mac OSx v.12.0.1 (21A559), RStudio v.2021.09.0 Build 351 and R v.4.0.3), it don't return any error.

oggioniale commented 2 years ago

@micha-silver I tested again the error within RStudio Cloud provided by @maurolepore. By executing step by step the rows within the get_site_ODS function all the rows are fine except for the command ds_site <- terra::mask(terra::crop(ds, boundary), terra::vect(boundary)). This command is executed fine in my local machine. In particular the problem is about the terra::crop(ds, boundary).

Can it be a version problem of the terra package? The version on my computer is 1.4-11 while the one on RStudio Cloud is 1.4-22. I can't test this because, on the operating system of the RStudio Cloud machine, I can't install the terra package with a version 1.4-11.

Could it be a problem about the size of the shape to be used for cutting? Because the extension of other sites is more little.

maurolepore commented 2 years ago

Thanks @oggioniale and @micha-silver for your prompt response.

I'm glad to see you're working to meet the submission requirements. To keep this thread focused on the peer-review process, I suggest you move this "internal" conversation to an issue/PR to the oggioniale/ReLTER repo.

oggioniale commented 2 years ago

@maurolepore in my local machine with this:

R version 4.1.2 (2021-11-01)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Monterey 12.0.1

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] xmlparsedata_1.0.5 compiler_4.1.2     prettyunits_1.1.1  remotes_2.4.2      tools_4.1.2        digest_0.6.29      pkgbuild_1.2.1     evaluate_0.14     
 [9] jsonlite_1.7.2     praise_1.0.0       lifecycle_1.0.1    rlang_0.4.12       rex_1.2.1          whoami_1.3.0       cli_3.1.0          rstudioapi_0.13   
[17] yaml_2.2.1         curl_4.3.2         xfun_0.28          xopen_1.0.0        fastmap_1.1.0      cyclocomp_1.1.0    knitr_1.36         withr_2.4.3       
[25] httr_1.4.2         xml2_1.3.3         desc_1.4.0         fs_1.5.1           rprojroot_2.0.2    glue_1.5.1         R6_2.5.1           processx_3.5.2    
[33] rcmdcheck_1.4.0    rmarkdown_2.11     callr_3.7.0        purrr_0.3.4        lintr_2.0.1        covr_3.5.1         magrittr_2.0.1     htmltools_0.5.2   
[41] clisymbols_1.2.0   ps_1.6.0           usethis_2.1.3      goodpractice_1.0.2 lazyeval_0.2.2     crayon_1.4.2

The result of R CMD check is:

> rcmdcheck::rcmdcheck(".")
── R CMD build ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✓  checking for file ‘.../DESCRIPTION’ (475ms)
─  preparing ‘ReLTER’: (4.7s)
✓  checking DESCRIPTION meta-information ...
─  installing the package to build vignettes
✓  creating vignettes (37.4s)
─  checking for LF line-endings in source and make files and shell scripts (1.2s)
─  checking for empty or unneeded directories
   Removed empty directory ‘ReLTER/tests/testthat/_snaps’
   Omitted ‘LazyData’ from DESCRIPTION
─  building ‘ReLTER_1.0.0.tar.gz’

── R CMD check 
─  using log directory ‘/private/var/folders/p1/110rx8q101z0wn0bwh4njrcw0000gn/T/Rtmp8dCnq3/filee2505040bc03/ReLTER.Rcheck’ (465ms)
─  using R version 4.1.2 (2021-11-01)
─  using platform: x86_64-apple-darwin17.0 (64-bit)
─  using session charset: UTF-8
✓  checking for file ‘ReLTER/DESCRIPTION’ (1.3s)
─  checking extension type ... Package
─  this is package ‘ReLTER’ version ‘1.0.0’
─  package encoding: UTF-8
✓  checking package namespace information ...
✓  checking package dependencies (2.5s)
✓  checking if this is a source package ...
✓  checking if there is a namespace
✓  checking for executable files (2.9s)
✓  checking for hidden files and directories ...
✓  checking for portable file names ...
✓  checking for sufficient/correct file permissions ...
✓  checking whether package ‘ReLTER’ can be installed (29.9s)
✓  checking installed package size
✓  checking package directory
✓  checking ‘build’ directory
✓  checking DESCRIPTION meta-information ...
✓  checking top-level files
✓  checking for left-over files ...
✓  checking index information ...
✓  checking package subdirectories (542ms)
✓  checking R files for non-ASCII characters ...
✓  checking R files for syntax errors ...
✓  checking whether the package can be loaded (6.6s)
✓  checking whether the package can be loaded with stated dependencies (7.5s)
✓  checking whether the package can be unloaded cleanly (7.8s)
✓  checking whether the namespace can be loaded with stated dependencies (8.3s)
✓  checking whether the namespace can be unloaded cleanly (10.6s)
✓  checking dependencies in R code (11.8s)
✓  checking S3 generic/method consistency (9.8s)
✓  checking replacement functions (18.3s)
✓  checking foreign function calls (13.7s)
✓  checking R code for possible problems (19.4s)
✓  checking Rd files (362ms)
✓  checking Rd metadata ...
✓  checking Rd cross-references ...
✓  checking for missing documentation entries (6.6s)
✓  checking for code/documentation mismatches (18.5s)
✓  checking Rd \usage sections (9.5s)
✓  checking Rd contents ...
✓  checking for unstated dependencies in examples ...
✓  checking R/sysdata.rda ...
✓  checking installed files from ‘inst/doc’ ...
✓  checking files in ‘vignettes’ ...
✓  checking examples (13.2s)
✓  checking for unstated dependencies in ‘tests’ ...
─  checking tests ...
✓  Running ‘testthat.R’ (2m 46.7s)
✓  checking for unstated dependencies in vignettes ...
✓  checking package vignettes in ‘inst/doc’ ...
─  checking running R code from vignettes
     ‘ReLTER.Rmd’ using ‘UTF-8’... OK
    NONE
✓  checking re-building of vignette outputs (1.6s)
✓  checking PDF version of manual (4.5s)

── R CMD check results ────────────── ReLTER 1.0.0 ────
Duration: 6m 19s

0 errors ✓ | 0 warnings ✓ | 0 notes ✓

maurolepore commented 2 years ago

Thanks @oggioniale you are on a good track, but R CMD checkmust pass cleanly on everyone's computers. Fortunately you seem to have identified a specific problem and a person that can help fix it. Also you now have two tools that will help you:

A fresh RStudio cloud project that allows you to work on your package in an R environment that reflects a "general" developer/user/reviewer better than your own machine: https://rstudio.cloud/project/3335565
CI: You now have workflows that run R CMD check on multiple platforms and with multiple versions of R, every time you push a commit to GitHub. Once all checks successfully pass green you will have solved the problem. This is not the case with the latest commit I see on GitHub:

--

BTW, which is your latest local commit? Are you in sync with the repo on GitHub? I'm surprised you don't get these R CMD check NOTE:

N  checking top-level files
   Non-standard files/directories found at top level:
     ‘CONTRIBUTING.md’ ‘LICENSE.md’ ‘README.Rmd’ ‘_pkgdown.yaml’
     ‘codemeta.json’ ‘docs’ ‘pkgdown’ ‘xslt’

Did you forget to commit and/or push any changes you did locally?

micha-silver commented 2 years ago

Hi @oggioniale and @maurolepore:

I think I have found and fixed the two remaining issues. I tested on Rstudio cloud, and test_local() now finish cleanly (except for 1 warning). Changes are pushed to the dev branch.

Since both @oggioniale and I did not find a problem with the test for get_site_ODS on our home machines, I checked on the Rstudio.cloud instance, and I noticed that the session is allocated only 1 GB of RAM. That probably was causing the crashes that we saw when testing with larger eLTER sites. To overcome this I replaced the tested sites with smaller ones.
I also changed the function get_network_sites so that it correctly returns NULL for the without_internet test.
@maurolepore Can you give us some hints why the files ‘CONTRIBUTING.md’ ‘LICENSE.md’ ‘README.Rmd’ etc are giving that note about Non-standard files ??
The remaining warning is, I think, due to a duplicate approxNA method in both raster and terra packages. I think we will be able to solve this rewriting some bits that require raster and then removing it.

@oggioniale If these changes are acceptable, please merge into main and restart the CI and tests.

maurolepore commented 2 years ago

Thanks @micha-silver! Great progress!!!

@maurolepore Can you give us some hints why the files ‘CONTRIBUTING.md’ ‘LICENSE.md’ ‘README.Rmd’ etc are giving that note about Non-standard files ??

You can fix that note with the help of usethis::use_build_ignore() (hinted above).

Formally, R packages know about some so-called "standard" files and directories, like DESCRIPTION and R/. If your package includes non-standard files and directories you must add their names to a file called .Rbuildignore.

The usethis package can help you add some of those files and update .Rbuildignore as needed -- all at once. For example, this comment above shows that usethis::use_gpl3_license() adds LICENSE.md to .Rbuildignore:

> use_gpl3_license()
✔ Setting active project to '/home/mauro/tmp/ReLTER'
✔ Adding '^LICENSE\\.md$' to '.Rbuildignore'

oggioniale commented 2 years ago

Dear @maurolepore, I worked for solve some issues about CI. Currently I had the errors on the Windows and Ubuntu (oldrel). In particular the error in Ubuntu is about Error: <callr_remote_error: Cannot install packages: (see image). I don't have experience about this. Do you have some suggestions? I followed some discussion online in order to find this issue but I didn't find the solution.

I'm working to install a Windows server machine and an Ubuntu machine to try to reproduce the error. If for the Windows one I am confident, for the Ubuntu one I don't understand why there is an error only for the old release.

micha-silver commented 2 years ago

I wonder if this issue from the pak github page is relevant?

The suggestion in that thread is to install pak from source: install.packages("pak", type = "source")

oggioniale commented 2 years ago

Dear @maurolepore, we have been working in these last 2 weeks to close the issues arisen after rcmdcheck on the Ubuntu OSs. Now we pretty sure that all is fine, also the R-CMD-Check is fine.

Please let we know the next steps.

maurolepore commented 2 years ago

@ropensci-review-bot check package

ropensci-review-bot commented 2 years ago

Thanks, about to send the query.

ropensci-review-bot commented 2 years ago

:rocket:

Editor check started

:wave:

maurolepore commented 2 years ago

That's great news! Thanks a lot for your efforts and sorry for my slow response. I've been very busy. I see the checks passing green on GH-Actions! :rocket:

The checks you're running are enough for now, but note DESCRIPTION declares this package works with R >= 3.5.0 so eventually you'll need to extend your workflow to include old releases back to 3.5.0. For inspiration see this check-full.yaml.

I'm running the checks via our bot, then review this thread and if all is okay will start looking for reviewers. I'll keep you posted.

:crossed_fingers:

ropensci-review-bot commented 2 years ago

Note: The following R packages were unable to be installed on our system: [xslt, jqr]; some checks may be unreliable.

ropensci-review-bot commented 2 years ago

Checks for ReLTER (v1.0.0)

git hash: bf50ec78

:heavy_check_mark: Package name is available
:heavy_check_mark: has a 'CITATION' file.
:heavy_check_mark: has a 'codemeta.json' file.
:heavy_check_mark: has a 'contributing' file.
:heavy_check_mark: uses 'roxygen2'.
:heavy_check_mark: 'DESCRIPTION' has a URL field.
:heavy_check_mark: 'DESCRIPTION' has a BugReports field.
:heavy_check_mark: Package has at least one HTML vignette
:heavy_check_mark: All functions have examples.
:heavy_check_mark: Package has continuous integration checks.
:heavy_multiplication_x: Package coverage failed
:heavy_multiplication_x: R CMD check process failed with message: 'Build process failed'.

Important: All failing checks above must be addressed prior to proceeding

Package License: GPL (>= 3)

1. Statistical Properties

This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.

Details of statistical properties (click to open)

The package has: - code in R (100% in 36 files) and - 4 authors - 1 vignette - no internal data file - 29 imported packages - 33 exported functions (median 28 lines of code) - 35 non-exported functions in R (median 44 lines of code) --- Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages The following terminology is used: - `loc` = "Lines of Code" - `fn` = "function" - `exp`/`not_exp` = exported / not exported The final measure (`fn_call_network_size`) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile. |measure | value| percentile|noteworthy | |:------------------------|-----:|----------:|:----------| |files_R | 36| 91.5| | |files_vignettes | 1| 64.8| | |files_tests | 27| 96.9| | |loc_R | 1926| 82.7| | |loc_vignettes | 48| 32.4| | |loc_tests | 1345| 88.3| | |num_vignettes | 1| 60.7| | |n_fns_r | 68| 58.7| | |n_fns_r_exported | 33| 79.1| | |n_fns_r_not_exported | 35| 47.6| | |n_fns_per_file_r | 1| 0.0|TRUE | |num_params_per_fn | 1| 1.1|TRUE | |loc_per_fn_r | 38| 90.8| | |loc_per_fn_r_exp | 28| 62.1| | |loc_per_fn_r_not_exp | 44| 94.0| | |rel_whitespace_R | 1| 11.0| | |rel_whitespace_vignettes | 46| 69.6| | |rel_whitespace_tests | 13| 92.8| | |doclines_per_fn_exp | 24| 21.0| | |doclines_per_fn_not_exp | 0| 0.0|TRUE | |fn_call_network_size | 38| 55.7| | ---

1a. Network visualisation

Click to see the interactive network visualisation of calls between objects in package

2. `goodpractice` and other checks

Details of goodpractice and other checks (click to open)

#### 3a. Continuous Integration Badges [![https\:\/\/github](https://github.com/oggioniale/ReLTER/workflows/R-CMD-check/badge.svg)](https\:\/\/github) **GitHub Workflow Results** |name |conclusion |sha |date | |:-------------------------------------|:----------|:------|:----------| |.github/workflows/check-standard.yaml |failure |7669f7 |2021-12-13 | |pages build and deployment |success |bf50ec |2021-12-21 | |R-CMD-check |success |bf50ec |2021-12-21 | --- #### 3b. `goodpractice` results #### `R CMD check` with [rcmdcheck](https://r-lib.github.io/rcmdcheck/) R CMD check generated the following error: 1. Error in proc$get_built_file() : Build process failed #### Test coverage with [covr](https://covr.r-lib.org/) ERROR: Test Coverage Failed #### Cyclocomplexity with [cyclocomp](https://github.com/MangoTheCat/cyclocomp) Error : Build failed, unknown error, standard output: * checking for file ‘ReLTER/DESCRIPTION’ ... OK * preparing ‘ReLTER’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes ----------------------------------- ERROR: dependencies ‘jqr’, ‘xslt’ are not available for package ‘ReLTER’ * removing ‘/tmp/Rtmp1CudbO/Rinst63e435db54b2/ReLTER’ ----------------------------------- ERROR: package installation failed #### Static code analyses with [lintr](https://github.com/jimhester/lintr) [lintr](https://github.com/jimhester/lintr) found no issues with this package!

3. Other Checks

:heavy_check_mark: Package contains the following (potentially) obsolete packages:

rgeos

See our Recommended Scaffolding for alternatives.

Package Versions

|package |version | |:--------|:---------| |pkgstats |0.0.3.59 | |pkgcheck |0.0.2.195 |

Editor-in-Chief Instructions:

Processing may not proceed until the items marked with :heavy_multiplication_x: have been resolved.

ropensci / software-review

Submission: ReLTER #485

Scope

Technical checks

Publication options

Code of conduct

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. `goodpractice` and other checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. `goodpractice` and other checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. `goodpractice` and other checks

3. Other Checks

Editor-in-Chief Instructions:

Technical checks

Installation and R CMD check

DESCRIPTION

Non-standard files and directories

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. `goodpractice` and other checks

3. Other Checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. `goodpractice` and other checks

3. Other Checks

Editor-in-Chief Instructions:

ropensci / software-review

Submission: ReLTER #485

Scope

Technical checks

Publication options

Code of conduct

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. goodpractice and other checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. goodpractice and other checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. goodpractice and other checks

3. Other Checks

Editor-in-Chief Instructions:

Technical checks

Installation and R CMD check

DESCRIPTION

Non-standard files and directories

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. goodpractice and other checks

3. Other Checks

Editor-in-Chief Instructions:

Checks for ReLTER (v1.0.0)

1. Statistical Properties

1a. Network visualisation

2. goodpractice and other checks

3. Other Checks

Editor-in-Chief Instructions:

2. `goodpractice` and other checks

2. `goodpractice` and other checks

2. `goodpractice` and other checks

2. `goodpractice` and other checks

2. `goodpractice` and other checks