aboutsummaryrefslogtreecommitdiff
path: root/pugl/waflib/extras/run_r_script.py
diff options
context:
space:
mode:
Diffstat (limited to 'pugl/waflib/extras/run_r_script.py')
-rw-r--r--pugl/waflib/extras/run_r_script.py86
1 files changed, 86 insertions, 0 deletions
diff --git a/pugl/waflib/extras/run_r_script.py b/pugl/waflib/extras/run_r_script.py
new file mode 100644
index 0000000..b0d8f2b
--- /dev/null
+++ b/pugl/waflib/extras/run_r_script.py
@@ -0,0 +1,86 @@
+#!/usr/bin/env python
+# encoding: utf-8
+# Hans-Martin von Gaudecker, 2012
+
+"""
+Run a R script in the directory specified by **ctx.bldnode**.
+
+For error-catching purposes, keep an own log-file that is destroyed if the
+task finished without error. If not, it will show up as rscript_[index].log
+in the bldnode directory.
+
+Usage::
+
+ ctx(features='run_r_script',
+ source='some_script.r',
+ target=['some_table.tex', 'some_figure.eps'],
+ deps='some_data.csv')
+"""
+
+
+import os, sys
+from waflib import Task, TaskGen, Logs
+
+R_COMMANDS = ['RTerm', 'R', 'r']
+
+def configure(ctx):
+ ctx.find_program(R_COMMANDS, var='RCMD', errmsg = """\n
+No R executable found!\n\n
+If R is needed:\n
+ 1) Check the settings of your system path.
+ 2) Note we are looking for R executables called: %s
+ If yours has a different name, please report to hmgaudecker [at] gmail\n
+Else:\n
+ Do not load the 'run_r_script' tool in the main wscript.\n\n""" % R_COMMANDS)
+ ctx.env.RFLAGS = 'CMD BATCH --slave'
+
+class run_r_script_base(Task.Task):
+ """Run a R script."""
+ run_str = '"${RCMD}" ${RFLAGS} "${SRC[0].abspath()}" "${LOGFILEPATH}"'
+ shell = True
+
+class run_r_script(run_r_script_base):
+ """Erase the R overall log file if everything went okay, else raise an
+ error and print its 10 last lines.
+ """
+ def run(self):
+ ret = run_r_script_base.run(self)
+ logfile = self.env.LOGFILEPATH
+ if ret:
+ mode = 'r'
+ if sys.version_info.major >= 3:
+ mode = 'rb'
+ with open(logfile, mode=mode) as f:
+ tail = f.readlines()[-10:]
+ Logs.error("""Running R on %r returned the error %r\n\nCheck the log file %s, last 10 lines\n\n%s\n\n\n""",
+ self.inputs[0], ret, logfile, '\n'.join(tail))
+ else:
+ os.remove(logfile)
+ return ret
+
+
+@TaskGen.feature('run_r_script')
+@TaskGen.before_method('process_source')
+def apply_run_r_script(tg):
+ """Task generator customising the options etc. to call R in batch
+ mode for running a R script.
+ """
+
+ # Convert sources and targets to nodes
+ src_node = tg.path.find_resource(tg.source)
+ tgt_nodes = [tg.path.find_or_declare(t) for t in tg.to_list(tg.target)]
+
+ tsk = tg.create_task('run_r_script', src=src_node, tgt=tgt_nodes)
+ tsk.env.LOGFILEPATH = os.path.join(tg.bld.bldnode.abspath(), '%s_%d.log' % (os.path.splitext(src_node.name)[0], tg.idx))
+
+ # dependencies (if the attribute 'deps' changes, trigger a recompilation)
+ for x in tg.to_list(getattr(tg, 'deps', [])):
+ node = tg.path.find_resource(x)
+ if not node:
+ tg.bld.fatal('Could not find dependency %r for running %r' % (x, src_node.abspath()))
+ tsk.dep_nodes.append(node)
+ Logs.debug('deps: found dependencies %r for running %r', tsk.dep_nodes, src_node.abspath())
+
+ # Bypass the execution of process_source by setting the source to an empty list
+ tg.source = []
+