v0.3.2 (#71)

abdenlab · Dec 1, 2024 · d99326b · d99326b
1 parent c94bbab
commit d99326b
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Showing 8 changed files with 34 additions and 8 deletions.
diff --git a/oxbow/Cargo.lock b/oxbow/Cargo.lock
diff --git a/oxbow/Cargo.toml b/oxbow/Cargo.toml
@@ -1,6 +1,6 @@
 [package]
 name = "oxbow"
-version = "0.3.1"
+version = "0.3.2"
 edition = "2021"
 license = "MIT OR Apache-2.0"
 readme = "../README.md"

diff --git a/py-oxbow/Cargo.lock b/py-oxbow/Cargo.lock
diff --git a/py-oxbow/Cargo.toml b/py-oxbow/Cargo.toml
@@ -1,6 +1,6 @@
 [package]
 name = "py-oxbow"
-version = "0.3.1"
+version = "0.3.2"
 edition = "2021"
 license = "MIT OR Apache-2.0"
 

diff --git a/r-oxbow/DESCRIPTION b/r-oxbow/DESCRIPTION
@@ -11,5 +11,6 @@ Description:
 License: MIT OR Apache-2.0
 Encoding: UTF-8
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.2.3
-Config/rextendr/version: 0.3.1.9000
+RoxygenNote: 7.3.2
+Config/rextendr/version: 0.3.1.9001
+SystemRequirements: Cargo (Rust's package manager), rustc
diff --git a/r-oxbow/NAMESPACE b/r-oxbow/NAMESPACE
@@ -1,6 +1,11 @@
 # Generated by roxygen2: do not edit by hand
 
 export(read_bam)
+export(read_bam_vpos)
 export(read_bcf)
+export(read_bcf_vpos)
+export(read_fasta)
+export(read_fastq)
 export(read_vcf)
+export(read_vcf_vpos)
 useDynLib(oxbow, .registration = TRUE)
diff --git a/r-oxbow/R/extendr-wrappers.R b/r-oxbow/R/extendr-wrappers.R
@@ -11,17 +11,37 @@
 #' @useDynLib oxbow, .registration = TRUE
 NULL
 
+#' Return Arrow IPC format from a FASTA file.
+#' @export
+read_fasta <- function(path, region) .Call(wrap__read_fasta, path, region)
+
+#' Return Arrow IPC format from a FASTQ file.
+#' @export
+read_fastq <- function(path) .Call(wrap__read_fastq, path)
+
 #' Return Arrow IPC format from a BAM file.
 #' @export
 read_bam <- function(path, region) .Call(wrap__read_bam, path, region)
 
+#' Return Arrow IPC format from a BAM file.
+#' @export
+read_bam_vpos <- function(path, cpos_lo, upos_lo, cpos_hi, upos_hi) .Call(wrap__read_bam_vpos, path, cpos_lo, upos_lo, cpos_hi, upos_hi)
+
 #' Return Arrow IPC format from a VCF file.
 #' @export
 read_vcf <- function(path, region) .Call(wrap__read_vcf, path, region)
 
+#' Return Arrow IPC format from a VCF file.
+#' @export
+read_vcf_vpos <- function(path, cpos_lo, upos_lo, cpos_hi, upos_hi) .Call(wrap__read_vcf_vpos, path, cpos_lo, upos_lo, cpos_hi, upos_hi)
+
 #' Return Arrow IPC format from a BCF file.
 #' @export
 read_bcf <- function(path, region) .Call(wrap__read_bcf, path, region)
 
+#' Return Arrow IPC format from a BCF file.
+#' @export
+read_bcf_vpos <- function(path, cpos_lo, upos_lo, cpos_hi, upos_hi) .Call(wrap__read_bcf_vpos, path, cpos_lo, upos_lo, cpos_hi, upos_hi)
+
 
 # nolint end
diff --git a/r-oxbow/src/rust/Cargo.lock b/r-oxbow/src/rust/Cargo.lock