Difference between revisions of "Talk:Make"
From Christoph's Personal Wiki
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<pre> | <pre> | ||
| − | for pdbid in $(cat | + | %.cph.fa: %.cph |
| − | + | for pdbid in $$(cat $< | gawk '{print $$2}' | sort | uniq); | |
| − | done | + | do wget http://www.rcsb.org/pdb/files/$$pdbid.pdb.gz; |
| − | wait | + | done |
| − | for pdbid in *.gz; | + | wait |
| − | + | for pdbid in *.gz; do gunzip $$pdbid; done | |
| − | done | + | for pdbid in $$(for pdbid in *.pdb; do basename $$pdbid .pdb; done); |
| − | for pdbid in $(for pdbid in *.pdb; do basename $pdbid .pdb; done); | + | do gmake $$pdbid.fa; |
| − | + | done | |
| − | done | + | for pdbid in *.fa; |
| − | for pdbid in *.fa; | + | do perl multi_alignaa.pl $(shell basename $< .cph).fa $$pdbid >> $@; |
| − | + | done | |
| − | done | + | |
</pre> | </pre> | ||
Revision as of 22:54, 17 October 2006
A list of random make/gmake/shell commands:
%.cph.fa: %.cph
for pdbid in $$(cat $< | gawk '{print $$2}' | sort | uniq);
do wget http://www.rcsb.org/pdb/files/$$pdbid.pdb.gz;
done
wait
for pdbid in *.gz; do gunzip $$pdbid; done
for pdbid in $$(for pdbid in *.pdb; do basename $$pdbid .pdb; done);
do gmake $$pdbid.fa;
done
for pdbid in *.fa;
do perl multi_alignaa.pl $(shell basename $< .cph).fa $$pdbid >> $@;
done
