Error of installing CytoExploreR and its dependencies

[kim619]

Hi,

I have troubles with installing CytoExploreR due to openCyto and flowWorksapce dependencies cannot be installed.

I used these codes to install the dependencies:

BiocManager::install(c("cytolib", "flowCore", "flowWorkspace", "openCyto"))

and it gave me these warnings:

`ld: library 'crypto' not found
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [flowWorkspace.so] Error 1
ERROR: compilation failed for package ‘flowWorkspace’

• removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/flowWorkspace’
  ERROR: dependency ‘flowWorkspace’ is not available for package ‘openCyto’
• removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/openCyto’

Warning messages:
1: package(s) not installed when version(s) same as or greater than current; use force = TRUE to re-install: 'cytolib' 'flowCore'
2: In install.packages(...) :
installation of package ‘flowWorkspace’ had non-zero exit status
3: In install.packages(...) :
installation of package ‘openCyto’ had non-zero exit status`

Then, when I tried to install CytoExploreR:

`ERROR: dependencies ‘flowWorkspace’, ‘openCyto’ are not available for package ‘CytoExploreR’

• removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/CytoExploreR’
  Warning messages:
  1: In i.p(...) :
  installation of package ‘flowWorkspace’ had non-zero exit status
  2: In i.p(...) :
  installation of package ‘openCyto’ had non-zero exit status
  3: In i.p(...) :
  installation of package ‘/var/folders/ch/n66znysd6mg3vnbryrr4vytr0000gq/T//RtmpAFGs1r/file26ee464b55e4/CytoExploreR_1.1.0.tar.gz’ had non-zero exit status`

Thanks so much in advance for the helps!

[DillonHammill]

Please provide details about your operating system (i.e. windows/mac/linux).

[kim619]

I use mac system, thanks.

[DillonHammill]

Your build error is pointing to an issue with openssl. You'll need to re-install it from the terminal:

brew install openssl

[kim619]

I install the openssl but still showed up with these errors and warnings when I ran these:

BiocManager::install(c("cytolib", "flowCore", "flowWorkspace", "openCyto"))

`ld: library 'crypto' not found
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [flowWorkspace.so] Error 1
ERROR: compilation failed for package ‘flowWorkspace’

• removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/flowWorkspace’
  ERROR: dependency ‘flowWorkspace’ is not available for package ‘openCyto’
• removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/openCyto’

The downloaded source packages are in
‘/private/var/folders/ch/n66znysd6mg3vnbryrr4vytr0000gq/T/RtmpP5uXHf/downloaded_packages’
Warning messages:
1: In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘flowWorkspace’
2: package(s) not installed when version(s) same as or greater than current; use force = TRUE to re-install: 'cytolib' 'flowCore'
3: In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘flowWorkspace’
4: In install.packages(...) :
installation of package ‘flowWorkspace’ had non-zero exit status
5: In install.packages(...) :
installation of package ‘openCyto’ had non-zero exit status
Loading required package: flowWorkspace`