FCS3.2 files can not be imported

[Thomas-Do]

Describe the bug
flowcore 2.14.0 can not import recent FCS files of Version 3.2 – 2020-07-01. The FCS3.2 standard is defined here: https://flowcyt.sourceforge.net/fcs/fcs32.pdf.

To Reproduce
Importing FCS3.2 files with the read.flowSet() function will result in an error: "error in readFCSheader(con) : This does not seem to be a valid FCS2.0, FCS3.0 or FCS3.1 file".

The test was done with files from the BDFACS Discover S8 cell sorter.

[SamGG]

Hi,
This has been updated recently #263 in version 2.15.1 of flowCore. It is not available in the current release 3.18 of Bioconductor, but is present in the devel version 3.19 https://bioconductor.org/packages/devel/bioc/html/flowCore.html.
Either install bioc devel, or install V2.15.1 from github in the current 3.18 version of Bioc, which might be possible after checking the requirements BiocGenerics (>= 0.29.2), cytolib (>= 2.13.1), but I didn't test it.
Best.

[Thomas-Do]

Thanks a lot for the fast reply! Am 25.01.2024 15:56, schrieb Samuel Granjeaud:

Hi, This has been updated recently #263 [1] in version 2.15.1 of flowCore. It is not available in the current release 3.18 of Bioconductor, but is present in the devel version 3.19 https://bioconductor.org/packages/devel/bioc/html/flowCore.html. Either install bioc devel, or install V2.15.1 from github in the current 3.18 version of Bioc, which might be possible after checking the requirements BiocGenerics (>= 0.29.2), cytolib (>= 2.13.1), but I didn't test it. Best. -- Reply to this email directly, view it on GitHub [2], or unsubscribe [3]. You are receiving this because you authored the thread.Message ID: ***@***.***>

Links: ------ [1] #263 [2] #265 (comment) [3] https://github.com/notifications/unsubscribe-auth/AAKVMDWJCUGBXYA2IUKGGVTYQJXBXAVCNFSM6AAAAABCFP2UXKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSMJQGM3TIOJRGQ

[mikejiang]

I just pushed the change to release and develop branches of bioconductor, which will be
Version: 2.14.1
Version: 2.15.2

[SamGG]

Sorry, I thought 2.15.1 was already on Bioc Devel.
@mikejiang Thanks, S8 are increasing in number.