Hi everyone, I'm new in this platform and i'm trying to use RStudio for a second analysis of bulk-RNAseq. I'm trying to open H5 files. But i got an error:

dropping unused factor levels
.Errore in H5Fopen(file, flags = flags, fapl = fapl, native = native) : 
  HDF5. File accessibility. Unable to open file.

I initially include the path into the data frame as indicated below:

> print(s2c)
     sample timepoint path
PIR1   PIR1   Initial $PATH/Quant_post/PIR1
PIR2   PIR2   Initial $PATH/Quant_post/PIR2
PIR3   PIR3   Initial $PATH/Quant_post/PIR3
PRR1   PRR1  Recovery $PATH/Quant_post/PRR1
PRR2   PRR2  Recovery $PATH/Quant_post/PRR2
PRR3   PRR3  Recovery $PATH/Quant_post/PRR3
VIR1   VIR1   Initial $PATH/Quant_post/VIR1
VIR2   VIR2   Initial $PATH/Quant_post/VIR2
VIR3   VIR3   Initial $PATH/Quant_post/VIR3
VRR1   VRR1  Recovery $PATH/Quant_post/VRR1
VRR2   VRR2  Recovery $PATH/Quant_post/VRR2
VRR3   VRR3  Recovery $PATH/Quant_post/VRR3

In each directory I have a h5 file:

> dir("$PATH/Quant_post/PIR1/", "h5$") 
[1] "abundance.h5"

Could someone help me in a simple ways? Sorry but I'm really new and I don't know well the correct way to communicate in this topic.

sessionInfo( )
R version 4.1.2 (2021-11-01)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 22.04.2 LTS

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.10.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.10.0

locale:
 [1] LC_CTYPE=it_IT.UTF-8       LC_NUMERIC=C               LC_TIME=it_IT.UTF-8        LC_COLLATE=it_IT.UTF-8     LC_MONETARY=it_IT.UTF-8    LC_MESSAGES=it_IT.UTF-8   
 [7] LC_PAPER=it_IT.UTF-8       LC_NAME=C                  LC_ADDRESS=C               LC_TELEPHONE=C             LC_MEASUREMENT=it_IT.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] parallel  stats4    stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] doParallel_1.0.17           iterators_1.0.14            foreach_1.5.2               rhdf5_2.38.1                sleuth_0.30.1               biomaRt_2.50.3             
 [7] pheatmap_1.0.12             RColorBrewer_1.1-3          DESeq2_1.34.0               SummarizedExperiment_1.24.0 Biobase_2.54.0              MatrixGenerics_1.6.0       
[13] matrixStats_1.0.0           GenomicRanges_1.46.1        GenomeInfoDb_1.30.1         IRanges_2.28.0              S4Vectors_0.32.4            BiocGenerics_0.40.0        
[19] ggplot2_3.4.2               dplyr_1.1.2                

loaded via a namespace (and not attached):
 [1] httr_1.4.6             bit64_4.0.5            splines_4.1.2          BiocFileCache_2.2.1    blob_1.2.4             GenomeInfoDbData_1.2.7 progress_1.2.2        
 [8] pillar_1.9.0           RSQLite_2.3.1          lattice_0.21-8         glue_1.6.2             digest_0.6.33          XVector_0.34.0         colorspace_2.1-0      
[15] Matrix_1.6-0           XML_3.99-0.14          pkgconfig_2.0.3        genefilter_1.76.0      zlibbioc_1.40.0        purrr_1.0.1            xtable_1.8-4          
[22] scales_1.2.1           BiocParallel_1.28.3    tibble_3.2.1           annotate_1.72.0        KEGGREST_1.34.0        generics_0.1.3         cachem_1.0.8          
[29] withr_2.5.0            lazyeval_0.2.2         cli_3.6.1              survival_3.5-5         magrittr_2.0.3         crayon_1.5.2           memoise_2.0.1         
[36] fansi_1.0.4            xml2_1.3.5             data.table_1.14.8      tools_4.1.2            prettyunits_1.1.1      hms_1.1.3              lifecycle_1.0.3       
[43] stringr_1.5.0          Rhdf5lib_1.16.0        munsell_0.5.0          locfit_1.5-9.8         DelayedArray_0.20.0    AnnotationDbi_1.56.2   Biostrings_2.62.0     
[50] compiler_4.1.2         rlang_1.1.1            grid_4.1.2             RCurl_1.98-1.12        rhdf5filters_1.6.0     rstudioapi_0.15.0      rappdirs_0.3.3        
[57] bitops_1.0-7           codetools_0.2-19       gtable_0.3.3           DBI_1.1.3              curl_5.0.1             R6_2.5.1               fastmap_1.1.1         
[64] bit_4.0.5              utf8_1.2.3             filelock_1.0.2         stringi_1.7.12         Rcpp_1.0.11            vctrs_0.6.3            geneplotter_1.72.0    
[71] png_0.1-8              dbplyr_2.3.3           tidyselect_1.2.0

Those are apparently files from running kallisto, yes? In which case you should use tximport to read the data in.