From 8c96b17a5393bffee0c521c4872a9fa999048032 Mon Sep 17 00:00:00 2001 From: David Robillard Date: Sat, 15 Sep 2018 14:51:02 +0200 Subject: Squashed 'waflib/' content from commit 982416b git-subtree-dir: waflib git-subtree-split: 982416b8a6c6728e200243e1be3ab60435c08830 --- extras/run_r_script.py | 86 ++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 86 insertions(+) create mode 100644 extras/run_r_script.py (limited to 'extras/run_r_script.py') diff --git a/extras/run_r_script.py b/extras/run_r_script.py new file mode 100644 index 0000000..b0d8f2b --- /dev/null +++ b/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 = [] + -- cgit v1.2.1