I have the following Makefile:
all: generate print # <-- doesn't work
date:
date > date.txt
ls:
ls -la > ls.txt
generate: ls date
print: *.txt
cat $^
clean:
rm *.txt
The targets date and ls generate a file each, the target print, prints them out.
How do I write the target all, so that it first generates the files and then prints it?
Just add the pipe symbol:
all: | generate print
From the make manual:
Order-only prerequisites can be specified by placing a pipe symbol (|) in the prerequisites list: any prerequisites to the left of the pipe symbol are normal; any prerequisites to the right are order-only:
targets : normal-prerequisites | order-only-prerequisites
The dependancy hierarchy of the rules you want is all -> print -> generate.
'print' should be dependant on 'generate'.
The Makefile you have is interesting. On first pass it generates the .txt files using { all -> generate -> ls, date } hierarchy but the print fails. On second pass if you don't do clean it works.
The 'print' rule you have is a valid rule. But doesn't allow make to know that you need to do the 'generate' actions before doing the 'print'.
You could EXplicitly make a print rule which says it is dependant on generating date.txt and ls.txt. Try change your 'all' and 'print' rules like this . . .
EDIT: SORRY! First Answer I gave doesn't work. Tested it. This works.
all: print # <- just print target here as you don't want generate to happen after print
.
print: generate ls.txt date.txt
cat $^
Make could decide to do print action first and the generate action afterwards if print is not made dependant on the files explicitly or generate.
This works but we get an error as the cat of non existant file generate doesn't work.
Taking this a bit further . . . Get rid of the generate rule. And I think the date and ls rule would be better if they explicitly detailed what file they generated, i.e.
all: print
date.txt:
date > date.txt
ls.txt:
ls -la > ls.txt
print: ls.txt date.txt
cat $^
*.txt. If you want to operate on multiple files with same extension then you can do different things e.g. put the list of files in a make variable. You can have a make rule to calculate this list of files (using shell cmd in make). But that make rule cannot be dependant on the files already existing if it is the thing that is generating them.
The make manual gives a rule very close to your original print rule - using wildcard in rule prerequisites.
http://www.gnu.org/software/make/manual/make.html#Wildcard-Examples
Make has quite a simple hierarchy of dependancies. Make will follow dependancies in order.
Getting your head around the sequence a makefile will follow can be tricky but it is actually quite simple enough so well worth while working on understanding it.
It is a common problem for makefiles for some part of make system to be missing a dependancy on another. Often build systems will get away with this but sometimes it can cause weirdness (e.g. object files being compiled after being linked in).
The make manual has a good introduction.
http://www.gnu.org/software/make/manual/make.html#Introduction
Secondary Expansion not work for me.
I choose to delay wildcard call by use another make in recipe:
all: generate
$(MAKE) print
Related
I'm trying to make a make file for a static page generator, and I'm using jinja and pandoc so far, and the idea is to have a file structure as such
.
|-content
|-public
|-templates
|-Makefile
VPATH=public
TARGETS=$(find content -regex ".*(htm|md)" | sed -e "s/md$/htm/g;s/^content/public/g")
all: $(TARGETS)
#echo fullbuild
public/%: content/%
content/%.md:
# Pandoc script
pandoc -i $# -o ${${#:.md=.htm}:content=public}
content/%.htm:
# Jinja Script
The problem I'm having (At least I think that's it) is that according to me the syntax is
# For a final result
target: dependency
commands
# A rule for dependency
dependency:
commands
My dependencies are in the content dir and my targets are in the public dir that may or may not exist yet, and almost all the files I generate will be htm files, and in that case if the target is public/some/route/to/file.htm the dependency will be any of this two content/some/route/to/file.(htm|md).
I can easily generate by walking the content dir, and changing extensions.
How should I write the rules properly, so
- Make knows where to "watch" for changes every time I do a make, because right now it points that every file is up to date
- How do I indicate properly the dependency of a file to it's content file.
This rule:
public/%: content/%
does nothing because pattern rules without recipes delete existing pattern rules, they don't define new pattern rules.
It's very simple, you should write two rules like this:
public/%.htm: content/%.md:
# Pandoc script
pandoc -i $< -o $#
public/%.htm: content/%.htm
# Jinja Script
Here's a hint: whenever you're writing a makefile recipe and you discover that you need to create a target which is different than exactly $#, unmodified, immediately stop what you're doing and back up: you've taken a wrong turn.
I have this version of makefile
[sbsuser#compute-00-01 415]$ make --version GNU Make 3.81
I have directory SOMATIC where I have 3 file . I want to produce a only one output. This is what I wrote.
`
OUTSOMATIC=SOMATIC
FINAL=FINAL
INPUT=$(wildcard $(OUTSOMATIC)/*.vcf)
OUTSORT2= $(patsubst $(OUTSOMATIC)/%.vcf,$(FINAL)/%somatic.ensemble.gz,$(INPUT))
$(info lista $(OUTSORT2))
$(info lista $(INPUT))
.PHONY: all
all: $(INPUT) $(OUTSOMATIC) $(OUTSORT2) $(FINAL)
$(FINAL)/%somatic.ensemble.gz: $(OUTSOMATIC)/%.vcf $(INPUT)
~/jdk1.8.0_121/bin/java -XX:+UseSerialGC -Xms1g -Xmx10g -jar /illumina/software/PROG2/bcbio-variation-recall-0.1.7 ensemble -n 1 $(FINAL)/somatic_ensemble.gz /illumina/software/database/database_2016/hg19_primary.fa $^
`
With this script make 3 time the same files. I don't understand how to create only one output from list of input to use in the same time.
What is the best way to do this?
If I change $(FINAL)/%somatic.ensemble.gz: in $(FINAL)/somatic.ensemble.gz I have this error:
make: *** No rule to make target FINAL/415_merge_mutect2.somaticsomatic.ensemble.gz', needed byall'. Stop`
You probably should review the GNU make manual introductory sections where they describe how make works.
Let's look at your makefile; first you define some variables. Let's assume that you have the files SOMATIC/foo.vcf, SOMATIC/bar.vcf, and SOMATIC/baz.vcf. Then the variables you created will have these values, after they are expanded:
OUTSOMATIC = SOMATIC
FINAL = FINAL
INPUT = SOMATIC/foo.vcf SOMATIC/bar.vcf SOMATIC/baz.vcf
Now your patsubst finds all words in INPUT that match the pattern SOMATIC/%.vcf and replace that with FINAL/%somatic.ensemble.gz, where the part that matches the % in the input is substituted into the output:
OUTSORT2 = FINAL/foosomatic.ensemble.gz FINAL/barsomatic.ensemble.gz FINAL/bazsomatic.ensemble.gz
Now, make sees that you've defined an all target. Since it's the first target in the makefile this is the target that will be run by default. After expansion, it will look like this:
all: SOMATIC/foo.vcf SOMATIC/bar.vcf SOMATIC/baz.vcf SOMATIC FINAL/foosomatic.ensemble.gz FINAL/barsomatic.ensemble.gz FINAL/bazsomatic.ensemble.gz FINAL
So, make will try to build every prerequisite of the all target to be sure it's up to date. First it tries to build the SOMATIC/*.vcf files. Those files already exist and make doesn't have any rules about how to rebuild them, so it assumes they're up to date.
Next it tries to build the SOMATIC file. This is a directory and it also has no rule to be built, so make assumes that's up to date as well.
Next make tries to build the target FINAL/foosomatic.ensemble.gz. Make does have a rule that can build it, you've created one:
$(FINAL)/%somatic.ensemble.gz: $(OUTSOMATIC)/%.vcf $(INPUT)
~/jdk1.8.0_121/bin/java ...
This matches the target you want to build, with a % value of foo, so then make substitutes the % in the prerequisite for foo and finds that SOMATIC/foo.vcf exists and doesn't need to be rebuilt, so it runs your recipe. However your recipe doesn't actually create the target FINAL/foosomatic.ensemble.gz; it creates the target FINAL/somatic_ensemble.gz. So this rule is broken because it tells make it will do one thing, but it does something else.
You should always ensure all your recipes build the file represented by the automatic variable $#; that will ensure that you and make agree on the meaning of your rule. If you want your recipe to build some other file, then your rule is written incorrectly.
Next make does the same thing with the next prerequisite of all: FINAL/barsomatic.ensemble.gz. Since that file doesn't exist, make tries to build it using the pattern rule, but again that creates the same output file.
And again for the third .gz file FINAL/bazsomatic.ensemble.gz. That's why things are run three times.
If you change the pattern rule to an explicit rule building FINAL/somatic.ensemble.gz, which is what you want, then make can't find any way to build the prerequisites of the all target so it gives this error.
Your problem is the creation of OUTSORT2. You want to create only one output file, but you've set OUTSORT2 to contain three different files, so make tries to create all three files. You want this:
OUTSOMATIC = SOMATIC
FINAL = FINAL
INPUT = $(wildcard $(OUTSOMATIC)/*.vcf)
OUTSORT2 = $(FINAL)/somatic.ensemble.gz
.PHONY: all
all: $(OUTSORT2)
$(OUTSORT2): $(INPUT)
~/jdk1.8.0_121/bin/java -XX:+UseSerialGC -Xms1g -Xmx10g -jar /illumina/software/PROG2/bcbio-variation-recall-0.1.7 ensemble -n 1 $# /illumina/software/database/database_2016/hg19_primary.fa $^
I'm trying to write a Makefile where multiple source files (in my case they are markdown) create multiple target files (pdfs). However, the target files generated have extra characters in the file name that can't be predicted (it happens to be a version number encoded in the source), but ideally the Makefile would not have to read the source itself.
So, for example:
file1.md => file1-v1.pdf
file2.md => file2-v2.pdf
...
I can calculate source name given a target name (by excluding anything after the hyphen and adding .md), but cannot calculate target name given the source.
Is it possible to write a Makefile that builds only the targets where the source have been updated?
This will be ugly, but it will work.
As it often is with Make, our problem divides into these two problems:
1. construct a list of targets
2. build them
Suppose we have five md files which map to pdf files (whose names we don't know beforehand):
file1.md => file1-v1.pdf
file2.md => file2-v1.pdf
file3.md => file3-v1.pdf
file4.md => file4-v1.pdf
file5.md => file5-v1.pdf
We can't use the real output file names as targets, because we don't know them beforehand, but we see five input files and know that we must build one output file for each. For now, a fake target name will do:
file1-dummy.pdf: file1.md
zap file1.md
When Make executes this rule, it produces the file file1-v1.pdf. The fact that it doesn't produce a file named file1-dummy.pdf is disquieting, but not a serious problem. We can turn this into a pattern rule:
%-dummy.pdf: %.md
zap $<
Then all we have to do is turn the list of existing input files (file1.md, file2.md, ...) into a list of dummy targets (file1-dummy.pdf, file2-dummy.pdf, ...), and build them. So far, so good.
But suppose some of the output files already exist. If file2-v2.pdf already exists -- and is newer than file2.md -- then we would prefer that Make not rebuild it (by attempting to build file2-dummy.pdf). In that case we would prefer that file2-v2.pdf be in the target list, with a rule that worked like this:
file2-v2.pdf: file2.md
zap $<
This is not easy to turn into a pattern rule, because Make does not handle wildcards very well, and cannot cope with multiple wildcards in a single phrase, not without a lot of clumsiness. But there is a way to write one rule that will cover both cases. First note that we can obtain the part of a variable before the hyphen with this kludge:
$(basename $(subst -,.,$(VAR)))
Armed with this, and with secondary expansion, we can write a pattern rule that will work with both cases, and construct a target list that will exploit it:
# There are other ways to construct these two lists, but this will do.
MD := $(wildcard *.md)
PDF := $(wildcard *.pdf)
PDFROOTS := $(basename $(subst -,.,$(basename $(PDF))))
MDROOTS := $(filter-out $(PDFROOTS), $(basename $(MD)))
TARGETS:= $(addsuffix -foo.pdf, $(MDROOTS)) $(PDF)
.SECONDEXPANSION:
%.pdf: $$(basename $$(subst -,., $$*)).md
# perform actions on $<
Make's algorithm always starts with the final output product and works its way backwards to the source files, to see what needs to be updated.
Therefore, you HAVE to be able to enumerate the final output product as a target name and correlate that back to the inputs that generate that output, for make to work.
This is also why make is not a great tool for building Java, for example, since the output filenames don't map easily to the input file names.
So, you must have at least one target/prerequisite pair which is derivable (for implicit rules), or state-able (for explicit rules)--that is, known at the time you write the makefile. If you don't then a marker file is your only alternative. Note you CAN add extra generated, non-derivative prerequisites (for example, in compilers you can add header files as prerequisites that are not related to the source file name), in addition to the known prerequisite.
#Beta's answer is informative and helpful, but I needed a solution (using GNU Make 4.1) that worked when the destination filename bears no resemblance to the input filename, for example, if it is generated from its content. I came up with the following, which takes every file matching *.in, and creates a file by reading the contents of the source file, appending a .txt, and using it as a filename to create. (For example, if test.in exists and contains foo, the makefile will create a foo.txt file.)
SRCS := $(wildcard *.in)
.PHONY: all
all: all_s
define TXT_template =
$(2).txt: $(1)
touch $$#
ALL += $(2).txt
endef
$(foreach src,$(SRCS),$(eval $(call TXT_template, $(src), $(shell cat $(src)))))
.SECONDARY_EXPANSION:
all_s: $(ALL)
The explanation:
The define block defines the recipe needed to make the text file from the .in file. It's a function that takes two parameters; $(1) is the .in. file and $(2) is the contents of it, or the base of the output filename. Replace touch with whatever makes the output. We have to use $$# because eval will expand everything once, but we want $# to left after this expansion. Since we have to collect all the generated targets so we known what all the make, the ALL line accumulates the targets into one variable. The foreach line goes through each source file, calls the function with the source filename and the contents of the file (i.e. what we want to be the name of the target, here you'd normally use whatever script generates the desired filename), and then evaluates the resulting block, dynamically adding the recipe to make. Thanks to Beta for explaining .SECONDARY_EXPANSION; I needed it for reasons not entirely clear to me, but it works (putting all: $(ALL) at the top doesn't work). The all: at the top depends on the secondary expansion of all_s: at the bottom and somehow this magic makes it work. Comments welcome.
maybe try this ? or something along those lines
# makefile
SRCS=$(wildcard *.md)
PDFS=$(shell printf *.pdf)
$(PDFS): $(SRCS)
command ...
the printf *.pdf is meant to either expand to the first of the pdf files if they exist, else fail if they don't and that will signal to make that it should build. if this doesn't work i suggest maybe experimenting with find, ls or other listing tools (e.g. compgen, complete), maybe even in combination with xargs to get everything on one line.
Before I start, I'll mention that I'm not using GNU Make in this case for building a C/C++ project.
Makefile:
DEST_DIR = build/
SRC_DIR = src/
$(SRC_DIR)a/ : $(SOMETHING_ELSE)
$(DO_SOMETHING_TO_GENERATE_A_DIR)
$(DEST_DIR)% : $(SRC_DIR)%
cp -r $^ $#
ALL_DEPS += <SOMETHING>
... more code which appends to ALL_DEPS ...
.PHONY: all
all : $(ALL_DEPS)
I've got some files not generated via Make rules in $(SRC_DIR). (For the sake of this example, let's say there's a directory $(SRC_DIR)b/ and a file $(SRC_DIR)c .)
I want to append to ALL_DEPS all targets which represent files or directories in $(DEST_DIR) so that "make all" will run all of the available $(DEST_DIR)% rules.
I thought to do something like this:
ALL_DEPS += $(addprefix $(DEST_DIR),$(notdir $(wildcard $(SRC_DIR)*)))
But of course, that doesn't catch anything that hasn't yet been made. (i.e. it doesn't append $(DEST_DIR)a/ to the list because $(SRC_DIR)a/ doesn't yet exist when the $(wildcard ...) invocation is evaluated and the shell doesn't include it in the results returned by the $(wildcard ...) invocation.)
So, rather than a function which finds all (currently-existing) files matching a pattern, I need one which finds all targets matching a pattern. Then, I could do something like this:
ALL_DEPS += $(addprefix $(DEST_DIR),$(notdir $(targetwildcard $(SRC_DIR)*)))
If it matters any, I've got much of the GNU Make code split across multiple files and included by a "master" Makefile. The ALL_DEPS variable is appended to in any of these files which has something to add to it. This is in an attempt to keep the build process modular as opposed to dropping it all in one monster Makefile.
I'm definitely still learning GNU Make, so it's not unlikely that I'm missing something fairly obvious. If I'm just going about this all wrong, please let me know.
Thanks!
It is simply not possible to do what you're trying to do; you're trying to get make to recognise something that doesn't exist.
This is part of the reason why, in general, wildcards are bad (the other being that you can end up including stuff you didn't mean to). The right thing to do here is to explicitly create a list of source files (ls -1 | sed -e 's/\(.*\)/sources+=\1/' > dir.mk) and perform the patsubst transformation on that list.
If you have additional files that are generate as part of the build, then you can append them to that list and their rules will be found as you'd expect.
Assume I have a make rule:
.PHONY:gen
gen: auto.template
generate-sources auto.template
that creates a bunch of files, for example auto1.src, auto2.src, auto3.src and so on.
If I now have rules to build targets from *.src files, like this:
$(patsubst %.src,%.target,$(wildcard *.src)): %.target: %.src
build $< > $#
How can I tell make to first execute the gen rule and then expand the preconditions for the second rule template? GNU extensions are welcome.
Note: I would like to keep it in one make invocation; A trivial solution to this would be to put the second rule in a secondary Makefile.secondrun and call $(MAKE) -f Makefile.secondrun after gen was processed. But I was wondering if there is a better option.
Building off Beta's answer, here's how you can do it using makefile remaking in GNU make, which is not the same thing as recursive make. Rather, it updates an included makefile using a rule in the main makefile, then restarts the original make instance. This is how *.d dependency files are typically generated and used.
# Get the list of auto-generated sources. If this file doesn't exist, or if it is older
# than auto.template, it will get built using the rule defined below, according to the
# standard behavior of GNU make. If autosrcs.mk is rebuilt, GNU make will automatically
# restart itself after autosrcs.mk is updated.
include autosrcs.mk
# Once we have the list of auto-generated sources, getting the list of targets to build
# from them is a simple pattern substitution.
TARGETS=$(patsubst %.src,%.target,$(AUTO_SRCS))
all: $(TARGETS)
# Rule describing how to build autosrcs.mk. This generates the sources, then computes
# the list of autogenerated sources and writes that to autosrcs.mk in the form of a
# make variable. Note that we use *shell* constructs to get the list of sources, not
# make constructs like $(wildcard), which could be expanded at the wrong time relative
# to when the source files are actually created.
autosrcs.mk: auto.template
./generate-sources auto.template
echo "AUTO_SRCS=`echo *.src`" > autosrcs.mk
# How to build *.target files from *.src files.
%.target: %.src
#echo 'build $< > $#'
Short answer: you can't. Make determines all of the rules it will have to execute before it executes any rule.
Longer answer: maybe you can. As you say, you can use recursive Make explicitly, or surreptitiously by, say, building a file which your makefile will include (I'm looking at you, Jack Kelly). Or if you could somehow obtain a list of the files which gen will build, you could write a rule around that. Or you could take a leap of faith like this:
%.target: %.src
build $< > $#
%.src: gen;