library(devtools)
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
there is no package called ‘bitops’
Error: package or namespace load failed for ‘devtools’
Try:
install.packages("bitops")
Related
Error: package or namespace load failed for ‘tidytext’ in library.dynam(lib, package, package.lib): shared object ‘stringi.so’ not found
6.
stop(msg, call. = FALSE, domain = NA)
5.
value[3L]
4.
tryCatchOne(expr, names, parentenv, handlers[[1L]])
3.
tryCatchList(expr, classes, parentenv, handlers)
2.
tryCatch({ attr(package, "LibPath") <- which.lib.loc ns <- loadNamespace(package, lib.loc) env <- attachNamespace(ns, pos = pos, deps) ...
1.
library(tidytext)
upon running
tidyverse:::tidyverse_attach()
tidyverse:::tidyverse_conflicts()
> tidyverse:::tidyverse_attach()
Error in library.dynam(lib, package, package.lib) :
shared object ‘stringi.so’ not found
> tidyverse:::tidyverse_conflicts()
Error in library.dynam(lib, package, package.lib) :
shared object ‘stringi.so’ not found
Try running install.packages('stringi')
See this issue thread for more details: https://github.com/bvieth/powsimR/issues/20
I personally found that when my OS updates R, all of my downloaded packages get broken in some weird way. I've yet to find a fix for it.
I'm trying to build the hasura cli: https://github.com/hasura/graphql-engine/tree/master/cli with the following code (deps derived from dep2nix):
{ buildGoPackage, fetchFromGitHub }:
buildGoPackage rec {
version = "1.0.0-beta.2";
name = "hasura-${version}";
goPackagePath = "github.com/hasura/graphql-engine";
subPackages = [ "cli" ];
src = fetchFromGitHub {
owner = "hasura";
repo = "graphql-engine";
rev = "v${version}";
sha256 = "1b40s41idkp1nyb9ygxgsvrwv8rsll6dnwrifpn25bvnfk8idafr";
};
goDeps = ./deps.nix;
}
but I get the following errors after the post-installation fixup step:
find: '/nix/store/gkck68cm2z9k1qxgmh350pq3kwsbyn8q-hasura-cli-1.0.0-beta.2': No such file or directory.
What am I doing wrong here? For reference, I'm on macOS and using home-manager.
For anyone still wondering:
There are a couple of things to consider:
dep has been deprecated in favor of go modules
This is also reflected in Nix, as buildGoPackage is now legacy and moved to buildGoModule
There is already a hasura-cli package in nixpkgs. You can just use it with nix-shell -p hasura-cli
I am building my C++ project using Bazel on macOS, and I added the gRPC as one of the deps
FYI, I successfully built with same settings on Linux, however, it fails for me on macOS.
WORKSPACE
git_repository(
name = "com_github_grpc_grpc",
remote = "https://github.com/grpc/grpc",
tag = "v1.20.1"
)
load("#com_github_grpc_grpc//bazel:grpc_deps.bzl", "grpc_deps")
grpc_deps()
and the build file for my module
a.BUILD
cc_library(
name = "s12",
srcs = glob(
["**/*.cc"],
),
hdrs = glob(
["**/*.h",],
),
deps = [
"#com_github_grpc_grpc//:grpc++",
"#com_google_protobuf//:protobuf",
],
)
and in linking stage I got following error:
[libprotobuf ERROR external/com_github_sc_protobuf/src/google/protobuf/descriptor_database.cc:58] File already exists in database: google/protobuf/descriptor.proto
[libprotobuf FATAL external/com_github_sc_protobuf/src/google/protobuf/descriptor.cc:1370] CHECK failed: GeneratedDatabase()->Add(encoded_file_descriptor, size):
libc++abi.dylib: terminating with uncaught exception of type google::protobuf::FatalException: CHECK failed: GeneratedDatabase()->Add(encoded_file_descriptor, size):
external/bazel_tools/tools/test/test-setup.sh: line 310: 63268 Abort trap: 6 "${TEST_PATH}" "$#" 2>&1
Apparently, some file is included multiple times, however, I couldn't figure out why.
I am attempting to build the gitlib-libgit2 Haskell package on macos via nix in roughly the following manner.
mkdir nix-repro && cd nix-repro
cabal2nix --no-check cabal://gitlib-libgit2 > gitlib-libgit2.nix
echo '(import <nixpkgs> {}).haskellPackages.callPackage ./gitlib-libgit2.nix {}' > default.nix
nix-build
I am seeing the following warnings and error:
ld: warning: /nix/store/spx9xz1jv3yhmqw8y3agki1fvdr2x2fv-libiconv-osx-10.11.6/lib/libiconv.dylib, ignoring unexpected dylib file
ld: warning: /nix/store/spx9xz1jv3yhmqw8y3agki1fvdr2x2fv-libiconv-osx-10.11.6/lib/libiconv.dylib, ignoring unexpected dylib file
/nix/store/s33984hx2gwcg2d4dgpcm4342md19qvh-cctools-binutils-darwin/bin/ranlib: object: dist/build/libHSgitlib-libgit2-3.1.2.1-1fYQZMedHRP3aXiBXJFDO2-ghc8.6.3.a(s2_meth.o) malformed object (unknown load command 1)
`ranlib' failed in phase `Ranlib'. (Exit code: 1)
builder for '/nix/store/yrran1p69pvdq1b34jqfq7dmd95j9fh9-gitlib-libgit2-3.1.2.1.drv' failed with exit code 1
error: build of '/nix/store/yrran1p69pvdq1b34jqfq7dmd95j9fh9-gitlib-libgit2-3.1.2.1.drv' failed
What does this mean, and how can I go about fixing it?
It only fails this way on macos, as far as I can tell. I'm on nixpkgs-unstable. I am able to build this package using other tools, so the failure must be something specific to the nix tooling I'm using to build it.
$ cat $HOME/.nix-defexpr/channels/nixpkgs/.git-revision
6e5caa3f8ac48750233ef82a94825be238940825
Here's the full gitlib-libgit2.nix expression if you don't want to run cabal2nix for yourself:
{ mkDerivation, base, bytestring, conduit, conduit-combinators
, containers, directory, exceptions, fast-logger, filepath, gitlib
, gitlib-test, hlibgit2, hspec, hspec-expectations, HUnit, mmorph
, monad-loops, mtl, resourcet, stdenv, stm, stm-conduit, tagged
, template-haskell, text, text-icu, time, transformers
, transformers-base, unliftio, unliftio-core
}:
mkDerivation {
pname = "gitlib-libgit2";
version = "3.1.2.1";
sha256 = "b90e0ad2e7e0f58379e02cbe60d2900c95f0a255c34bd3461f8ee5753a6aa23e";
libraryHaskellDepends = [
base bytestring conduit conduit-combinators containers directory
exceptions fast-logger filepath gitlib hlibgit2 mmorph monad-loops
mtl resourcet stm stm-conduit tagged template-haskell text text-icu
time transformers transformers-base unliftio unliftio-core
];
testHaskellDepends = [
base exceptions gitlib gitlib-test hspec hspec-expectations HUnit
transformers
];
doCheck = false;
description = "Libgit2 backend for gitlib";
license = stdenv.lib.licenses.mit;
}
after I login the Desktop Rstudio, the following message will appear:
Error in yaml.load(readLines(con), error.label = error.label, ...) :
object 'C_unserialize_from_yaml' not found
Error in yaml.load(readLines(con), error.label = error.label, ...) :
object 'C_unserialize_from_yaml' not found
Error in yaml.load(readLines(con), error.label = error.label, ...) :
object 'C_unserialize_from_yaml' not found
Error in yaml.load(readLines(con), error.label = error.label, ...) :
object 'C_unserialize_from_yaml' not found
Error in yaml.load(readLines(con), error.label = error.label, ...) :
object 'C_unserialize_from_yaml' not found
and I try to reinstall R and Rstudio with the newest program,it still appear error again.
when I start R program ,it can work with no error. Only Rstudio, and I try to rename the directory"C:\Users\Administrator\AppData\Local\RStudio-Desktop" in another name, Let it create when Rstudio launch,the error message again.
And I can't knit some Rmd file working normal, it will appear following error:
Error in yaml::yaml.load(string, ...) :
找不到对象'C_unserialize_from_yaml'
Calls: <Anonymous> ... parse_yaml_front_matter -> yaml_load_utf8 -> <Anonymous>
停止执行
Who can help me to slove the problem.Thanks very much.
I reverted to yaml R package version 2.1.14 and it fixed it for me.
https://cran.r-project.org/src/contrib/Archive/yaml/
Use this R command to install the package from source (provided the working directory is set to where the R package is):
install.packages("yaml_2.1.14.tar.gz", repos = NULL)
You can do it by
require(devtools)
install_version("yaml", version = "2.1.14", repos = "http://cran.us.r-project.org")
It resolved my issue