pplacer - and undefined mclgUnionv reference
Hello,
I had a look at the MCL package and found that it is very much focused
on the MCL library but apparently does not feature the impala library
that ships the implementation of mclgUnionv. Proof below, I compiled MCL
myself and copied libimpala.a to the ocaml directory.
I am mostly clueless about ocaml. Does this help anyone to fix the
problem or have a chat with the Debian maintainer of the mcl package? Uh
- that's us. :o/
Steffen
moeller@steffen-laptop-debian:~/git/med-team/pplacer/_build$ ocamlfind
ocamlopt -ccopt -static -linkpkg -package batteries -package csv
-package xmlm -package gsl -package sqlite3 -package zip -packag
e mcl -thread -cclib -lpthread -cclib -lpplacercside -cclib
-Lpplacer_src -cclib -lcdd -cclib -Lcdd_src -cclib -lpplacer_pam -cclib
-Lpam_src -cclib -lgsl -I cdd_src -I common_src -I json_src -I pplac
er_src -I pam_src cdd_src/cdd.cmx common_src/ppr.cmx
common_src/mapsSets.cmx common_src/number.cmx common_src/algMap.cmx
common_src/ppatteries.cmx common_src/linear_utils.cmx
json_src/jsontype.cmx jso
n_src/jsonparse.cmx json_src/jsonlex.cmx json_src/json.cmx
pplacer_src/simple_json.cmx pplacer_src/refpkg_parse.cmx
pplacer_src/fasta.cmx pplacer_src/nuc_models.cmx
pplacer_src/prot_models.cmx pplacer
_src/stockholm.cmx common_src/alignment.cmx common_src/batchfile.cmx
common_src/delayed.cmx common_src/file_parsing.cmx
common_src/power_iteration.cmx common_src/sql.cmx
common_src/subcommand.cmx comm
on_src/uptri.cmx common_src/version.cmx pplacer_src/myxml.cmx
pplacer_src/newick_bark.cmx pplacer_src/bark_map.cmx
pplacer_src/stree.cmx pplacer_src/gtree.cmx pplacer_src/edge_rdist.cmx
pplacer_src/ne
wick_parse_state.cmx pplacer_src/newick_parser.cmx
pplacer_src/newick_lexer.cmx pplacer_src/tax_id.cmx
pplacer_src/placement.cmx pplacer_src/pquery.cmx
pplacer_src/pquery_io.cmx pplacer_src/newick_gtr
ee.cmx pplacer_src/placerun.cmx pplacer_src/mass_map.cmx
pplacer_src/matrix.cmx pam_src/pam_solver.cmx
pplacer_src/kr_distance.cmx pplacer_src/barycenter.cmx
pplacer_src/decor.cmx pplacer_src/decor_ba
rk.cmx pplacer_src/decor_gtree.cmx pplacer_src/tensor.cmx
pplacer_src/linear.cmx pplacer_src/diagd.cmx pplacer_src/gamma.cmx
pplacer_src/glvm.cmx pplacer_src/glv_arr.cmx pplacer_src/glv_edge.cmx pplac
er_src/gstar_support.cmx pplacer_src/like_stree.cmx
pplacer_src/gcat_model.cmx pplacer_src/prefs.cmx
pplacer_src/parse_stats.cmx pplacer_src/gmix_model.cmx
pplacer_src/tax_classify.cmx pplacer_src/tax
_seqinfo.cmx pplacer_src/tax_taxonomy.cmx pplacer_src/tax_map.cmx
pplacer_src/refpkg.cmx pplacer_src/convex.cmx
pplacer_src/edge_painting.cmx pplacer_src/classif_map.cmx
pplacer_src/bayes_factor.cmx p
placer_src/biom.cmx pplacer_src/bootstrap.cmx pplacer_src/check.cmx
pplacer_src/fig.cmx pplacer_src/integration.cmx
pplacer_src/minimization.cmx pplacer_src/three_tax.cmx
pplacer_src/core.cmx pplacer_
src/edpl.cmx pplacer_src/string_matrix.cmx pplacer_src/fantasy.cmx
pplacer_src/gaussian_approx.cmx pplacer_src/tax_mass.cmx
pplacer_src/mokaphy_common.cmx pplacer_src/phyloxml.cmx pplacer_src/placerun
_io.cmx pplacer_src/visualization.cmx pplacer_src/voronoi.cmx
pplacer_src/guppy_cmdobjs.cmx pplacer_src/guppy_adcl.cmx
pplacer_src/guppy_bary.cmx pplacer_src/guppy_check.cmx
pplacer_src/guppy_to_rdp.c
mx pplacer_src/seq_post.cmx pplacer_src/map_seq.cmx
pplacer_src/multiprocessing.cmx pplacer_src/nbc.cmx
pplacer_src/seq_group.cmx pplacer_src/pplacer_run.cmx
pplacer_src/guppy_classify.cmx pplacer_src
/mass_overlap.cmx pplacer_src/guppy_mcl.cmx
pplacer_src/mass_compress.cmx pplacer_src/mass_islands.cmx
pplacer_src/guppy_compress.cmx pplacer_src/guppy_demulti.cmx
pplacer_src/guppy_distmat.cmx pplace
r_src/guppy_edpl.cmx pplacer_src/guppy_splitify.cmx
pplacer_src/guppy_pca.cmx pplacer_src/pca.cmx pplacer_src/som.cmx
pplacer_src/guppy_epca.cmx pplacer_src/guppy_error.cmx
pplacer_src/tax_gtree.cmx p
placer_src/guppy_fat.cmx pplacer_src/guppy_filter.cmx
pplacer_src/guppy_fpd.cmx pplacer_src/guppy_heat.cmx
pplacer_src/indep_contrasts.cmx pplacer_src/guppy_indep_c.cmx
pplacer_src/guppy_info.cmx ppla
cer_src/guppy_islands.cmx pplacer_src/r_plots.cmx
pplacer_src/guppy_kr.cmx pplacer_src/guppy_kr_heat.cmx
pplacer_src/lpca.cmx pplacer_src/guppy_lpca.cmx
pplacer_src/guppy_merge.cmx pplacer_src/guppy_m
ft.cmx pplacer_src/guppy_ograph.cmx pplacer_src/guppy_placemat.cmx
pplacer_src/guppy_pmlpca.cmx pplacer_src/rarefaction.cmx
pplacer_src/guppy_rarefact.cmx pplacer_src/guppy_rarefy.cmx pplacer_src/gupp
y_redup.cmx pplacer_src/guppy_round.cmx pplacer_src/guppy_sing.cmx
pplacer_src/squashfunc.cmx pplacer_src/guppy_squash.cmx
pplacer_src/guppy_to_csv.cmx pplacer_src/guppy_to_json.cmx
pplacer_src/guppy_
tog.cmx pplacer_src/guppy_trim.cmx pplacer_src/guppy_unifrac.cmx
pplacer_src/guppy_commands.cmx pplacer_src/guppy.cmx cdd_src/libcdd.a
pam_src/libpplacer_pam.a pplacer_src/libpplacercside.a /usr/lib/o
caml/libimpala.a -o pplacer_src/guppy.native && echo ok
/usr/bin/ld: /usr/lib/x86_64-linux-gnu/libsqlite3.a(sqlite3.o): in
function `unixDlOpen':
(.text+0x83c9): warning: Using 'dlopen' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(initgroups.o): in function
`unix_initgroups':
(.text+0x1f): warning: Using 'initgroups' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getgr.o): in function
`unix_getgrgid':
(.text+0x16e): warning: Using 'getgrgid' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getgr.o): in function
`unix_getgrnam':
(.text+0x114): warning: Using 'getgrnam' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getpw.o): in function
`unix_getpwnam':
(.text+0x164): warning: Using 'getpwnam' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getpw.o): in function
`unix_getpwuid':
(.text+0x1be): warning: Using 'getpwuid' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getaddrinfo.o): in function
`unix_getaddrinfo':
(.text+0x1f9): warning: Using 'getaddrinfo' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(gethost.o): in function
`unix_gethostbyaddr':
(.text+0x1bc): warning: Using 'gethostbyaddr_r' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(gethost.o): in function
`unix_gethostbyname':
(.text+0x242): warning: Using 'gethostbyname_r' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getproto.o): in function
`unix_getprotobynumber':
(.text+0xe8): warning: Using 'getprotobynumber' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getproto.o): in function
`unix_getprotobyname':
(.text+0xc1): warning: Using 'getprotobyname' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getserv.o): in function
`unix_getservbyname':
(.text+0x109): warning: Using 'getservbyname' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
/usr/bin/ld: /usr/lib/ocaml/libunix.a(getserv.o): in function
`unix_getservbyport':
(.text+0x159): warning: Using 'getservbyport' in statically linked
applications requires at runtime the shared libraries from the glibc
version used for linking
ok
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