error generating part 4 report

[bethanyhallenbeck]

Hi!
(FYI, I just posted this to stackoverflow as well)
I am experiencing a persistent error 'error in g.report.part4(datadir= datadir, metadir= metadir, : object 'gdn' not found'. It appears that all my metadata for all parts is in the meta output directory and I also see the part2 summary. I am using the advanced sleep log...not sure if that might be the issue? I checked to make sure it was in the correct format and also ran the steps individually.

Here is my code:

GGIR(mode = 3:5,
     datadir = "test_RAW_files",
     outputdir = "sleep_output",
     do.report = c(1,2,4,5),
     idloc = 6,      # position of ID in filename (e.g., 10001 in "10001.gt3x")
     colid = 1,       # tells GGIR to extract ID from filename instead of using whole name
     #=====================
     # Part 1
     #=====================
     do.ENMO = TRUE,
     acc.metric = "ENMO",
     #=====================
     # Part 2
     #=====================
     maxdur = 11,
     #=====================
     # Part 3 + 4
     #=====================

     includenightcrit = 1,
     loglocation = "advanced_ggir_sleep_log_wide.csv",
     sleepwindowType = "guider",
     relyonguider = TRUE,
     sleeplogidnum = TRUE,
     # If relyonguider = FALSE and the sib overlaps only partially with the guider then it is the sib #that defines the edge of the SPT window and not the guider. If relyonguider = TRUE and the #sib overlaps only partially with the guider then it is #the guider that defines the edge of the #SPT window and not the sib
     #depends on the wording of the sleep log.
     possible_nap_window = c(9,18),
     possible_nap_dur = c(5,120),
     ignorenonwear = TRUE,

     #=====================
     # Visual report
     #=====================
     visualreport = TRUE,
     old_visualreport = FALSE)

Thank you for any suggestions!
Best,
Bethany

[vincentvanhees]

Re. stackoverflow: As stated here we encourage you to report problems and ask questions here on GitHub. I do not monitor what is written about GGIR on stackoverflow, social media or journal articles. The only place I try to provide some free support to GGIR users is here on GitHub.

When double posting always make sure to cross reference posts with a url.

Re. your question sleepwindowType = "guider", is the problem as this is not a valid value. Please see documentation here and here for how this parameter can be used.

[bethanyhallenbeck]

thank you!

[vincentvanhees]

Closing this discussion as there was no response and question seems to be answered.