Re: [infomap-nlp-users] infomap-build: Error 139 (segmentation fault)

[Bertram, A. <ber...@um...>]

Amir,

I believe this is a known issue for a 64-bit platform.  Please see the patch I submitted which I believe to solve this:

http://sourceforge.net/tracker/index.php?func=detail&aid=1806303&group_id=99109&atid=623181

I may have explained the details of why this was happening on the email list, but IIRC it has to do with picky compiler defaults for function return values, and the mymalloc function's return value being truncated to 32 bits.

HTH,

Albert Bertram


-----Original Message-----
From: Amir Hossein Jadidinejad [mailto:ami...@ya...]
Sent: Mon 11/3/2008 4:20 AM
To: inf...@li...
Subject: [infomap-nlp-users] infomap-build: Error 139 (segmentation fault)
 
Hi,I'm using a latest version of infomap on OpenSuse11 x64.
It successfully make and install but following is a error message when running infomap-build command:amir-pc:/ # infomap-build -s /test/kjbible.txt sf
Sourcing param file "/usr/local/share/infomap-nlp/default-params"
Sourcing extra param file "/tmp/infomap-build.PVwib4"
Contents are:
Removing extra param file
WORKING_DATA_DIR = "/collections/infomap_models/sf"
CORPUS_DIR = "/test"
CORPUS_FILE = "/test/kjbible.txt"
FNAMES_FILE = ""
ROWS = "20000"
COLUMNS = "1000"
SINGVALS = "100"
SVD_ITER = "100"
PRE_CONTEXT_SIZE = "15"
POST_CONTEXT_SIZE = "15"
WRITE_MATLAB_FORMAT = "0"
VALID_CHARS_FILE = "/usr/local/share/infomap-nlp/valid_chars.en"
STOPLIST_FILE = "/usr/local/share/infomap-nlp/stop.list"
COL_LABELS_FROM_FILE = "0"
COL_LABEL_FILE = ""
echo "Making datadir"
Making datadir
mkdir -p /collections/infomap_models/sf

==================================================
Building target: /collections/infomap_models/sf/wordlist
Prerequisites: /test/kjbible.txt
Mon Nov 3 12:05:43 EST 2008
..................................................
prepare_corpus \
                -cdir "/test" \
                -mdir "/collections/infomap_models/sf" \
                -cfile "/test/kjbible.txt" \
                -fnfile "" \
                -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
                -slfile "/usr/local/share/infomap-nlp/stop.list" \
                -rptfile ""
Locale set to en_US.
Opening File for "r":
        "/usr/local/share/infomap-nlp/valid_chars.en"
Opening File for "r":
        ""
my_fopen: No such file or directory
Opening File for "r":
        "/usr/local/share/infomap-nlp/stop.list"
Opening File for "w":
        "/collections/infomap_models/sf/wordlist"
Opening File for "r":
        "/test/kjbible.txt"
Opening File for "w":
        "/collections/infomap_models/sf/numDocs"
Typecount = 12805
Preparing to sort ... Sorting ... Done.
Opening File for "w":
        "/collections/infomap_models/sf/dic"
..................................................
Finishing target: /collections/infomap_models/sf/wordlist
==================================================


==================================================
Building target: /collections/infomap_models/sf/coll
Prerequisites: /collections/infomap_models/sf/wordlist /collections/infomap_models/sf/dic /collections/infomap_models/sf/numDocs
Mon Nov 3 12:05:43 EST 2008
..................................................
count_wordvec \
                -mdir /collections/infomap_models/sf \
                -matlab 0 \
                -precontext 15 \
                -postcontext 15 \
                -rows 20000 \
                -columns 1000 \
                -col_labels_from_file 0 \
                -col_label_file ""
model data dir is "/collections/infomap_models/sf".
count_wordvec.c: looking for 12805 rows
which had better match 12805
Reading the dictionary... Opening File for "r":
        "/collections/infomap_models/sf/dic"
Opening File for "r":
        "/collections/infomap_models/sf/numDocs"
Initializing row indices...Done.
Initializing column indices...Done.
Allocating matrix memory...done.
Initializing matrix...done.
model data dir is "/collections/infomap_models/sf".
count_wordvec.c: about to call process_wordlist
Entering process_wordlist.
About to call initialize_wordlist.
Opening File for "r":
        "/collections/infomap_models/sf/wordlist"
Returned from initialize_wordlist.
Writing the co-occurrence matrix.
Entering write_matrix_svd; rows = 12805 and columns = 1000.
Opening File for "w":
        "/collections/infomap_models/sf/coll"
Opening File for "w":
        "/collections/infomap_models/sf/indx"
..................................................
Finishing target: /collections/infomap_models/sf/coll
==================================================




==================================================
Building target: /collections/infomap_models/sf/left
Prerequisites: /collections/infomap_models/sf/coll /collections/infomap_models/sf/indx
Mon Nov 3 12:05:45 EST 2008
..................................................
cd /collections/infomap_models/sf && rm -f svd_diag left \
                                rght sing
cd /collections/infomap_models/sf && svdinterface \
                -singvals 100 \
                -iter 100

  This is svdinterface.

  Writing to: left
  Writing to: rght
  Writing to: sing
  Writing to: svd_diag
  Reading: indx
  Reading: indx
  Reading: coll
/bin/sh: line 2:  8375 Segmentation fault      svdinterface -singvals 100 -iter 100
make: *** [/collections/infomap_models/sf/left] Error 139 


Thanks in advance.
Regard,----------------------------------- 
Amir Hossein Jadidinejad 
Master of Computer Science 
Islamic Azad University, Iran 
Home Page: http://jadidi.info  E-Mail : am...@ja... , 
          ami...@ya...