checking on a possibly hardcoded path

Hi -- I am trying to do a little exploration of the code. I have had various
problems with conda so this might just be my personal problem, but look
at the bottom for a reference to /g/easybuild .... I've followed the instructions
for acquiring the adamson data in the README.md under benchmark.

```
Rscr --no-restore src/run_linear_pretrained_model.R \
--dataset_name adamson \
--test_train_config_id seed_1_adamson_split \
--pca_dim 10 \
--gene_embedding training_data \
--pert_embedding training_data \
--working_dir ./working_dir \
--result_id linear_results
- One or more packages recorded in the lockfile are not installed.
- Use `renv::status()` for more details.
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: ‘MatrixGenerics’

The following objects are masked from ‘package:matrixStats’:

colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: ‘generics’

The following objects are masked from ‘package:base’:

as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
setequal, union

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

anyDuplicated, aperm, append, as.data.frame, basename, cbind,
colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
get, grep, grepl, is.unsorted, lapply, Map, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
rbind, Reduce, rownames, sapply, saveRDS, table, tapply, unique,
unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:utils’:

findMatches

The following objects are masked from ‘package:base’:

expand.grid, I, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor

Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.

Attaching package: ‘Biobase’

The following object is masked from ‘package:MatrixGenerics’:

rowMedians

The following objects are masked from ‘package:matrixStats’:

anyMissing, rowMedians

── Attaching core tidyverse packages ─────────────────────────────────────────── tidyverse 2.0.0 ──
✔ dplyr 1.1.4 ✔ readr 2.1.5
✔ forcats 1.0.0 ✔ stringr 1.5.1
✔ ggplot2 3.5.1 ✔ tibble 3.2.1
✔ lubridate 1.9.4 ✔ tidyr 1.3.1
✔ purrr 1.0.2
── Conflicts ───────────────────────────────────────────────────────────── tidyverse_conflicts() ──
✖ lubridate::%within%() masks IRanges::%within%()
✖ dplyr::collapse() masks IRanges::collapse()
✖ dplyr::combine() masks Biobase::combine(), BiocGenerics::combine()
✖ dplyr::count() masks matrixStats::count()
✖ dplyr::desc() masks IRanges::desc()
✖ tidyr::expand() masks S4Vectors::expand()
✖ dplyr::filter() masks stats::filter()
✖ dplyr::first() masks S4Vectors::first()
✖ dplyr::lag() masks stats::lag()
✖ ggplot2::Position() masks BiocGenerics::Position(), base::Position()
✖ purrr::reduce() masks GenomicRanges::reduce(), IRanges::reduce()
✖ dplyr::rename() masks S4Vectors::rename()
✖ lubridate::second() masks S4Vectors::second()
✖ lubridate::second<-() masks S4Vectors::second<-()
✖ dplyr::slice() masks IRanges::slice()
ℹ Use the conflicted package to force all conflicts to become errors
[[1]]
[1] FALSE

$help
[1] FALSE

$opts
[1] NA

$dataset_name
[1] "adamson"

$test_train_config_id
[1] "seed_1_adamson_split"

$pca_dim
[1] 10

$ridge_penalty
[1] 0.1

$seed
[1] 1

$gene_embedding
[1] "training_data"

$pert_embedding
[1] "training_data"

$working_dir
[1] "./working_dir"

$result_id
[1] "linear_results"

Registered S3 method overwritten by 'zellkonverter':
method from
py_to_r.pandas.core.arrays.categorical.Categorical reticulate
Error: Specified conda binary '/g/easybuild/x86_64/Rocky/8/haswell/software/Miniforge3/24.1.2-0/bin/conda' does not exist.
Execution halted
```