* using log directory 'd:/Rcompile/CRANpkg/local/4.2/TrustVDJ.Rcheck'
* using R version 4.2.1 (2022-06-23 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* checking for file 'TrustVDJ/DESCRIPTION' ... OK
* this is package 'TrustVDJ' version '0.1.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'TrustVDJ' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [14s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ...
Check process probably crashed or hung up for 20 minutes ... killed
Most likely this happened in the example checks (?),
if not, ignore the following last lines of example output:
6                 NA                 NA                                   
                                                   junction         junction_aa
1                TGTGCCAGCAGTGAAAGACATGCCACAGATACGCAGTATTTT      CASSERHATDTQYF
2       TGCGCCAGCAGTGTTCGTCCTAGCGGGGACAGCACAGATACGCAGTATTTT   CASSVRPSGDSTDTQYF
3                TGTGCCAGCACTCTAGCGGCTAGCACAGATACGCAGTATTTT      CASTLAASTDTQYF
4                   TGTGCCAGCAGCTTGAGGGGGGCGGATACGCAGTATTTT       CASSLRGADTQYF
5 TGCAGTGCCGCAACCCTAGTCCTAGCGGGGGGCCAGGGCACAGATACGCAGTATTTT CSAATLVLAGGQGTDTQYF
6       TGCGCCAGCAGCCAAGATAGGGTGGGGCTAGCGGGGGATACGCAGTATTTT   CASSQDRVGLAGDTQYF
   v_cigar    d_cigar    j_cigar v_identity j_identity          cell_id
1  56M107S             64S47M52S        100        100 CTCGTCATCGTTGCCT
2 281M120S 289S9M103S 300S49M52S        100        100 AGTGTCAGTCGAAAGC
3 280M112S 282S7M103S 291S49M52S        100        100 ACTGAACAGCCACCTG
4  60M105S   63S6M96S  70S43M52S        100        100 CAGTCCTGTTATCACG
5  24M129S 37S11M105S  53S48M52S        100        100 TTTGGTTCATCCGGGT
6 103M114S 109S14M94S 122S43M52S        100        100 GTATCTTGTCAACTGT
  complete_vdj consensus_count
1            F               1
2            T               4
3            T               3
4            F               4
5            F               1
6            F               9
> 
> # only barcode_report
> 
> # only report
> data = ReadTrust(report_file = report_file)
--! 2022-08-14 18:47:28 Ignored AIRR report file due to no exist: NA !--
--! 2022-08-14 18:47:28 Ignored TRUST4 barcode_report file due to no exist: NA !--
--> 2022-08-14 18:47:28 Reading: D:/RCompile/CRANpkg/lib/4.2/TrustVDJ/extdata/TRUST4_report.tsv.gz <--
======== End of example output (where/before crash/hang up occured ?) ========