fix check errors

.Rbuildignore

@@ -1,4 +1,5 @@
 ^doc$
+^configure.backup$
 ^Meta$
 ^doc(s)?$
 \.gitignore
@@ -13,11 +14,11 @@ clustermq_[0-9.]+\.tar\.gz
 ^\.github$
 ^src/libzmq/\.
 ^src/libzmq/config/.*\.m4$
+^src/libzmq/build_qnx/.*Makefile$
 ^src/libzmq/builds/openwrt/Makefile$
 ^src/libzmq/Makefile$
 ^src/libzmq/CMakeFiles$
 ^src/libzmq/external/wepoll$
-^src/libzmq/include/zmq_utils.h$
 ^src/libzmq/src/tweetnacl.c$
 ^src/cppzmq/\.
 ^windows$

R/worker.r

@@ -1,4 +1,5 @@
 loadModule("cmq_worker", TRUE) # CMQWorker C++ class
+utils::globalVariables(c("common_seed", "const", "fun")) # worker .GlobalEnv
 
 #' R worker submitted as cluster job
 #'

configure

@@ -26,6 +26,10 @@ if [ ! -f src/libzmq/src/.libs/libzmq.a ]; then
     mv src/curve_client_tools.hpp src/curve_client_tools.hpp.orig
     sed '/^#pragma/s|^|//|' src/curve_client_tools.hpp.orig > src/curve_client_tools.hpp
   fi
+  if [ ! -f include/zmq_utils.h.orig ]; then
+    mv include/zmq_utils.h src/zmq_utils.h.orig
+    sed '/^#pragma/s|^|//|' include/zmq_utils.h.orig > include/zmq_utils.h
+  fi
 
   if [ ! -f Makefile.in ]; then
     ./autogen.sh || die
@@ -43,7 +47,7 @@ if [ ! -f src/libzmq/src/.libs/libzmq.a ]; then
       --disable-curve-keygen \
       --disable-ws \
       --disable-radix-tree
-  make || die
+  make || exit 1
   cd -
 fi
 

vignettes/quickstart.Rmd

@@ -152,7 +152,7 @@ Q(fx, x=list(iris), n_jobs=1)
 
 `clustermq` can also be used as a parallel backend for
 [`foreach`](https://cran.r-project.org/package=foreach). As this is also
-used by [`BiocParallel`](http://bioconductor.org/packages/release/bioc/html/BiocParallel.html),
+used by [`BiocParallel`](https://bioconductor.org/packages/release/bioc/html/BiocParallel.html),
 we can run those packages on the cluster as well:
 
 ```{r}

vignettes/technicaldocs.Rmd

@@ -62,7 +62,7 @@ A pool of workers can be created using the `workers()` function, which
 instantiates a `Pool` object of the corresponding `QSys`-derived scheduler
 class. See `?workers` for details.
 
-```r
+```{r eval=FALSE}
 # start up a pool of three workers using the default scheduler
 w = workers(n_jobs=3)
 
@@ -101,7 +101,7 @@ After the expression (in `...`), any variables that should be passed along with
 the call can be added. For batch processing that `clustermq` usually does, this
 command is `work_chunk`, where the `chunk` data is added:
 
-```{r}
+```{r eval=FALSE}
 w$send(clustermq:::work_chunk(chunk, fun, const, rettype, common_seed),
        chunk = chunk(iter, submit_index))
 ```
@@ -173,7 +173,7 @@ names the proxy should add before forwarding to the worker.
 
 A worker evaluates the call using the R C API:
 
-```{r}
+```{r eval=FALSE}
 R_tryEvalSilent(cmd, env, &err);
 ```
 

vignettes/userguide.Rmd

@@ -281,7 +281,7 @@ clustermq::register_dopar_cmq(n_jobs=2, memory=1024) # this accepts same argumen
 x = foreach(i=1:3) %dopar% sqrt(i) # this will be executed as jobs
 ```
 
-As [BiocParallel](http://bioconductor.org/packages/release/bioc/html/BiocParallel.html)
+As [BiocParallel](https://bioconductor.org/packages/release/bioc/html/BiocParallel.html)
 supports `foreach` too, this means we can run all packages that use `BiocParallel`
 on the cluster as well via `DoparParam`.