Closed prattems closed 6 months ago
bnicenboim
commented
6 months ago Hi, thanks for reporting this. Could you send me reproducible example? if you install, reprex (https://reprex.tidyverse.org/), you can use the Addins menu in Rstudio and do Reprex selection. I want to know the order of loading packages and what exactly you're doing with the functions.
Also paste the output of sessionInfo()
prattems
commented
6 months ago Thanks so much,
In the example below I use your builtin data and code from the help files. The call to eeg_segment works but the subsequent call to eeg_reference gives the error regarding across.() not being found. I find the same error if dplyr is loaded before eeguana.
library(eeguana)
#> eeguana version 0.1.10.9001
#> An introduction to the package can be found in https://bruno.nicenboim.me/eeguana/articles/intro.html
library(dplyr)
#>
#> Attaching package: 'dplyr'
#> The following objects are masked from 'package:eeguana':
#>
#> across, between, c_across
#> The following objects are masked from 'package:stats':
#>
#> filter, lag
#> The following objects are masked from 'package:base':
#>
#> intersect, setdiff, setequal, union
data_faces_10_trials %>% eeg_segment(.description %in% c("s70", "s71"),
.lim = c(-5, 1))
#> # Total of 9 segments found.
#> # Object size in memory 7.3 Mb after segmentation.
#> # EEG data:
#>
#> # Signal table:
#> Key: <.id, .sample>
#> .id .sample Fp1 Fpz Fp2
#> <int> <sample_int> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: 1 -2499 -21.109169 -28.948433 -25.2941818
#> 2: 1 -2498 -26.754496 -31.574997 -29.3033142
#> 3: 1 -2497 -28.524906 -30.061056 -29.8119774
#> 4: 1 -2496 -19.430933 -21.690756 -22.9545746
#> 5: 1 -2495 -5.725405 -12.675667 -14.1778440
#> ---
#> 27005: 9 497 -8.819434 -10.321518 -4.1491461
#> 27006: 9 498 -6.959885 -10.197778 -3.9415770
#> 27007: 9 499 -1.756994 -7.125042 -1.8327932
#> 27008: 9 500 3.828817 -3.076797 0.1685476
#> 27009: 9 501 6.447233 -1.101932 0.8303175
#> F7 F3 Fz F4 F8
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: -10.91393471 -7.5658569 -8.7408314 -8.170362 -6.2060385
#> 2: -15.56297112 -8.5204601 -8.6705694 -7.897309 -6.2139606
#> 3: -18.79760742 -10.9199018 -8.0307159 -6.302173 -7.0704432
#> 4: -14.15851784 -11.1185970 -5.9641218 -3.515551 -9.4960175
#> 5: -2.97854924 -7.5502534 -3.7647977 -1.728970 -11.8486443
#> ---
#> 27005: -0.04505777 -3.4396243 -0.3492746 1.448371 -0.9764605
#> 27006: -0.39633083 -5.2603526 -0.5973411 2.423673 -1.4587488
#> 27007: 1.76945877 -4.0067720 0.8627796 3.911339 -2.3904738
#> 27008: 5.14945936 -1.2876422 2.6780972 4.573048 -3.9883673
#> 27009: 7.85265970 0.7570639 3.2915244 3.903461 -5.8100514
#> FC5 FC1 FC2 FC6 M1
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: -10.3604956 -8.741921 -11.687920 -3.2395220 -1.33440495
#> 2: -8.3586874 -9.393848 -11.007945 -2.0159216 -0.40914702
#> 3: -6.6766038 -10.921223 -9.508024 0.6382501 -0.02219653
#> 4: -5.3997726 -11.370429 -8.181183 2.3170936 -0.15380359
#> 5: -1.5244772 -10.140000 -8.618706 0.1669424 -0.42611933
#> ---
#> 27005: -3.1192555 7.583683 4.683777 2.0146487 -0.75850582
#> 27006: -5.0121384 7.003987 5.093409 2.6218574 -0.48889470
#> 27007: -3.8819036 8.010637 6.655658 2.4396117 0.37114978
#> 27008: 0.2056897 9.351544 7.915032 1.1819088 0.79920685
#> 27009: 3.5806384 9.694896 7.764079 -0.7410481 0.47170472
#> T7 C3 Cz C4 T8
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: -10.026085 -9.994508 -9.713416 -11.545010 -5.506052
#> 2: -10.864231 -11.186291 -10.363641 -10.096234 -13.692937
#> 3: -10.305115 -14.071175 -11.175298 -7.532410 -18.642357
#> 4: -6.952291 -15.679218 -11.470225 -5.610895 -15.585937
#> 5: -1.514339 -14.149639 -11.411907 -7.089185 -5.756573
#> ---
#> 27005: -2.933141 1.959429 5.739326 3.235288 7.357582
#> 27006: -3.713117 1.318202 5.491092 3.290012 7.295595
#> 27007: -2.321592 1.811074 6.128494 3.688938 5.087297
#> 27008: 1.119921 2.753958 6.793680 3.092779 3.427744
#> 27009: 3.754653 3.358357 6.357634 1.617870 3.171353
#> M2 CP5 CP1 CP2 CP6
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: 1.33440495 -10.124557 -21.182615 -8.225979 1.352515
#> 2: 0.40914702 -10.541845 -22.123146 -8.299847 2.918134
#> 3: 0.02219653 -10.097946 -22.904871 -7.499836 6.240794
#> 4: 0.15380359 -7.715628 -22.575096 -6.102085 8.873845
#> 5: 0.42611933 -3.972811 -21.122660 -5.780276 7.216280
#> ---
#> 27005: 0.75850582 2.440120 9.009402 2.962071 2.134945
#> 27006: 0.48889470 2.300604 8.520119 3.144351 2.515271
#> 27007: -0.37114978 2.277759 8.711225 3.692545 2.287699
#> 27008: -0.79920685 2.035310 8.742649 3.526225 -0.904506
#> 27009: -0.47170472 2.071527 8.072234 2.323087 -4.643136
#> P7 P3 Pz P4 P8
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: -12.080380 -10.113933 -8.703011 -4.20130539 3.195775
#> 2: -11.193981 -10.194810 -9.080425 -4.14209843 2.318590
#> 3: -7.487033 -9.285007 -8.754600 -2.61196470 3.541405
#> 4: -1.335482 -7.199755 -7.912488 -0.50822496 6.676203
#> 5: 4.918743 -4.848968 -7.416552 -0.01726842 8.177627
#> ---
#> 27005: -5.362492 3.755604 7.436291 0.44716191 -3.323942
#> 27006: -5.735914 3.123381 7.172704 0.63476968 -2.597961
#> 27007: -5.450908 3.175655 7.514575 0.96244740 -2.774142
#> 27008: -4.410063 3.246389 7.394914 0.24067569 -3.957345
#> 27009: -2.809917 2.920698 6.190672 -1.19312561 -4.774019
#> POz O1 Oz O2 EOGV
#> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl> <channel_dbl>
#> 1: -8.369589 -8.4397917 -3.8788650 -0.1158402 -19.684998
#> 2: -9.067577 -8.5709276 -4.3982387 -0.5201874 -16.109802
#> 3: -7.452994 -5.2471170 -1.8378611 1.8578585 -11.800674
#> 4: -4.108239 1.1644255 3.2520020 6.4933400 -7.483185
#> 5: -1.417105 7.4992466 8.0737114 10.8989525 -6.017853
#> ---
#> 27005: 5.305985 -2.0515025 -0.6655829 -1.8001112 -6.660660
#> 27006: 5.463353 -1.7843865 -0.1968485 -1.1158936 -5.629734
#> 27007: 5.724925 -0.8298787 0.3083435 -0.6791936 -5.186114
#> 27008: 5.367867 0.6219659 0.7365036 -0.5318193 -4.111660
#> 27009: 4.392406 2.3162208 1.4108977 0.1259224 -2.589244
#> EOGH
#> <channel_dbl>
#> 1: -54.449097
#> 2: -68.097107
#> 3: -83.815216
#> 4: -100.941864
#> 5: -118.664459
#> ---
#> 27005: 6.173569
#> 27006: 4.975996
#> 27007: 3.522355
#> 27008: 2.911364
#> 27009: 3.616112
#>
#> # Events table:
#> .id .type .description .initial .final .channel
#> <int> <char> <char> <sample_int> <sample_int> <char>
#> 1: 1 Bad Interval Bad Min-Max -2499 -1905 Fp1
#> 2: 1 Bad Interval Bad Min-Max -2499 -1906 Fpz
#> 3: 1 Bad Interval Bad Min-Max -2499 -1905 Fp2
#> 4: 1 Bad Interval Bad Min-Max -2499 -1980 F7
#> 5: 1 Bad Interval Bad Min-Max -2499 -1939 Fz
#> ---
#> 150: 9 Bad Interval Bad Min-Max -1691 -1349 Fpz
#> 151: 8 Bad Interval Bad Min-Max 277 501 F8
#> 152: 9 Bad Interval Bad Min-Max -1672 -1435 F8
#> 153: 9 Stimulus s130 -369 -369 <NA>
#> 154: 9 Stimulus s70 1 1 <NA>
#>
#> # Segments table:
#> Key: <.id>
#> .id .recording segment type description
#> <int> <char> <int> <char> <char>
#> 1: 1 faces.vhdr 1 Stimulus s70
#> 2: 2 faces.vhdr 2 Stimulus s71
#> 3: 3 faces.vhdr 3 Stimulus s71
#> 4: 4 faces.vhdr 4 Stimulus s71
#> 5: 5 faces.vhdr 5 Stimulus s70
#> 6: 6 faces.vhdr 6 Stimulus s71
#> 7: 7 faces.vhdr 7 Stimulus s71
#> 8: 8 faces.vhdr 8 Stimulus s70
#> 9: 9 faces.vhdr 9 Stimulus s70
data_faces_ERPs_M1 <- data_faces_ERPs %>%
eeg_rereference(-EOGV, -EOGH, .ref = M1)
#> Error in across.(tidyselect::all_of(c(Fp1 = "Fp1", Fpz = "Fpz", Fp2 = "Fp2", : could not find function "across."
############# sessionInfo() Output ##################
sessionInfo()
#> R version 4.1.2 (2021-11-01)
#> Platform: x86_64-pc-linux-gnu (64-bit)
#> Running under: Ubuntu 22.04.4 LTS
#>
#> Matrix products: default
#> BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
#> LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.20.so
#>
#> locale:
#> [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
#> [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
#> [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
#> [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
#> [9] LC_ADDRESS=C LC_TELEPHONE=C
#> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
#>
#> attached base packages:
#> [1] stats graphics grDevices utils datasets methods base
#>
#> other attached packages:
#> [1] dplyr_1.1.4 eeguana_0.1.10.9001
#>
#> loaded via a namespace (and not attached):
#> [1] rstudioapi_0.14 knitr_1.42 magrittr_2.0.3 munsell_0.5.0
#> [5] tidyselect_1.2.0 colorspace_2.1-0 R6_2.5.1 rlang_1.1.3
#> [9] fastmap_1.1.1 fansi_1.0.6 tools_4.1.2 grid_4.1.2
#> [13] tidytable_0.11.0 gtable_0.3.4 data.table_1.15.2 xfun_0.42
#> [17] utf8_1.2.4 cli_3.6.2 withr_3.0.0 htmltools_0.5.4
#> [21] yaml_2.3.7 digest_0.6.31 tibble_3.2.1 lifecycle_1.0.4
#> [25] purrr_1.0.2 ggplot2_3.5.0 vctrs_0.6.5 fs_1.6.0
#> [29] glue_1.7.0 evaluate_0.20 rmarkdown_2.20 reprex_2.1.0
#> [33] compiler_4.1.2 pillar_1.9.0 scales_1.3.0 generics_0.1.3
#> [37] pkgconfig_2.0.3Created on 2024-03-11 with reprex v2.1.0
bnicenboim
commented
6 months ago thanks, this is fixed now.
Feel free to use https://github.com/bnicenboim/eeguana/discussions if you have general questions
Several functions throw this error including eeg_rereference() and eeg_filt_band_pass(). I'm loading eeguana (version 0.1.10.9001) followed by dplyr (version 1.1.4). It looks like mutate.() is defined internally, but I'm not sure where across.() should be coming from.
Thanks so much, for the help and this package! I've only started using it but it's going to be terribly helpful (if I can learn dplyr).
Mike