Dear CCP4ers,
does anyone understand where the problem is? The run is from the program
rebatch.
Keywords are:
TITLE Rebatch file for multicrystal merging
BATCH 3 TO 15 REJECT
BATCH ALL START 1
END
Log file follows:
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
<html> <!-- CCP4 HTML LOGFILE -->
<hr>
<!--SUMMARY_END--></FONT></B>
<a name="rebatchrebatch"><h2>REBATCH</h2></a>
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
<pre>
###############################################################
###############################################################
###############################################################
### CCP4 6.1: REBATCH version 6.1 : 17/09/08##
###############################################################
User: unknown Run date: 17/ 1/2011 Run time: 10:55:58
Please reference: Collaborative Computational Project, Number 4. 1994.
"The CCP4 Suite: Programs for Protein Crystallography". Acta Cryst. D50,
760-763.
as well as any specific reference in the program write-up.
<!--SUMMARY_END--></FONT></B>
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
<a name="tocREBATCH"><h2>Contents</h2></a>
<ul>
<li><a href="#commandREBATCH">Command Input</a>
<li><a href="#inpREBATCH">Input MTZ File</a>
<li><a href="#outREBATCH">Output File</a>
</ul>
<hr>
<a name="commandREBATCH"><h3>Command Input</h3></a>
<a href="/home/james/build/ccp4-6.1.13/html/rebatch.html#title">TITLE </a>
<a href="/home/james/build/ccp4-6.1.13/html/rebatch.html#batch">BATCH </a>
<a href="/home/james/build/ccp4-6.1.13/html/rebatch.html#history">HISTORY </a>
<a href="/home/james/build/ccp4-6.1.13/html/rebatch.html#detector">DETECTOR
</a>
<a href="/home/james/build/ccp4-6.1.13/html/rebatch.html#end">END</a>
<!--SUMMARY_END--></FONT></B>
<hr>
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
<a name="inpREBATCH"><h3>Input MTZ File</h3></a>
<!--SUMMARY_END--></FONT></B>
WARNING: Dataset id missing from COLUMN records in MTZ header.
WARNING: Making default dataset assignments.
>>>>>> CCP4 library signal mtz:Missing or incomplete dataset information in
>>>>>> input
>>>>>>file. (Warning)
raised in MtzGet <<<<<<
OPENED INPUT MTZ FILE
Logical Name: HKLIN Filename:
/home/james/gwyndaf/non-isomorphism/data_for_BLEND/data/cP/d_02/sgc42-7-xds-15images.mtz
* Title:
From XDS file XDS_ASCII.HKL, XDS run on 24-Apr-2009 from images images
* Base dataset:
0 HKL_base
HKL_base
HKL_base
* Number of Datasets = 1
* Dataset ID, project/crystal/dataset names, cell dimensions, wavelength:
1 XDSproject
XDScrystal
XDSdataset
155.3040 155.3040 155.3040 90.0000 90.0000 90.0000
0.97780
* Number of Columns = 12
* Number of Reflections = 28622
* Missing value set to NaN in input mtz file
* Number of Batches = 15
* Column Labels :
H K L M/ISYM BATCH I SIGI FRACTIONCALC XDET YDET ROT LP
* Column Types :
H H H Y B J Q R R R R R
* Associated datasets :
0 0 0 0 0 0 0 0 0 0 0 0
* Cell Dimensions : (obsolete - refer to dataset cell dimensions above)
155.3040 155.3040 155.3040 90.0000 90.0000 90.0000
* Resolution Range :
0.00025 0.08184 ( 63.372 - 3.495 A )
* Sort Order :
1 2 3 4 5
* Space group = 'P 2 3' (number 195)
Data line--- TITLE Rebatch file for multicrystal merging
Data line--- BATCH 3 TO 15 REJECT
Data line--- BATCH ALL START 1
Data line--- END
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
List of original batch numbers and new batch numbers, = 0 if rejected
Reflections with width greater than maximum allowed width will be rejected
Old batch New batch Max allowed New project New crystal New dataset
no. no. width name name name
1 1 50.00
2 2 50.00
3 0 50.00
4 0 50.00
5 0 50.00
6 0 50.00
7 0 50.00
8 0 50.00
9 0 50.00
10 0 50.00
11 0 50.00
12 0 50.00
13 0 50.00
14 0 50.00
15 0 50.00
<!--SUMMARY_END--></FONT></B>
<hr>
<B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN-->
<a name="outREBATCH"><h3>Output File</h3></a>
<!--SUMMARY_END--></FONT></B>
*** buffer overflow detected ***: rebatch terminated
======= Backtrace: =========
/lib/libc.so.6(__fortify_fail+0x37)[0x2b06ab2da217]
/lib/libc.so.6(+0xfe0d0)[0x2b06ab2d90d0]
/lib/libc.so.6(+0xfd539)[0x2b06ab2d8539]
/lib/libc.so.6(__printf_fp+0x1541)[0x2b06ab227421]
/lib/libc.so.6(_IO_vfprintf+0x25fe)[0x2b06ab22299e]
/lib/libc.so.6(__vsprintf_chk+0x99)[0x2b06ab2d85d9]
/lib/libc.so.6(__sprintf_chk+0x7f)[0x2b06ab2d851f]
rebatch[0x4220d4]
rebatch[0x4084ef]
rebatch[0x408602]
rebatch[0x4060cb]
rebatch[0x406376]
rebatch[0x42b2ea]
/lib/libc.so.6(__libc_start_main+0xfd)[0x2b06ab1f9c4d]
rebatch[0x402669]
======= Memory map: ========
00400000-00438000 r-xp 00000000 08:11 6701231
/home/james/build/ccp4-6.1.13/bin/rebatch
00638000-00639000 r--p 00038000 08:11 6701231
/home/james/build/ccp4-6.1.13/bin/rebatch
00639000-0063a000 rw-p 00039000 08:11 6701231
/home/james/build/ccp4-6.1.13/bin/rebatch
0063a000-0179d000 rw-p 00000000 00:00 0
032c2000-032e3000 rw-p 00000000 00:00 0 [heap]
2b06a9915000-2b06a9935000 r-xp 00000000 08:11 5472457
/lib/ld-2.11.1.so
2b06a9935000-2b06a993a000 rw-p 00000000 00:00 0
2b06a9b34000-2b06a9b35000 r--p 0001f000 08:11 5472457
/lib/ld-2.11.1.so
2b06a9b35000-2b06a9b36000 rw-p 00020000 08:11 5472457
/lib/ld-2.11.1.so
2b06a9b36000-2b06a9b37000 rw-p 00000000 00:00 0
2b06a9b37000-2b06aa42c000 r-xp 00000000 08:11 9209497
/usr/lib/atlas/liblapack.so.3gf.0
2b06aa42c000-2b06aa62b000 ---p 008f5000 08:11 9209497
/usr/lib/atlas/liblapack.so.3gf.0
2b06aa62b000-2b06aa62c000 r--p 008f4000 08:11 9209497
/usr/lib/atlas/liblapack.so.3gf.0
2b06aa62c000-2b06aa631000 rw-p 008f5000 08:11 9209497
/usr/lib/atlas/liblapack.so.3gf.0
2b06aa631000-2b06aa73e000 rw-p 00000000 00:00 0
2b06aa73e000-2b06aa834000 r-xp 00000000 08:11 8925829
/usr/lib/libstdc++.so.6.0.13
2b06aa834000-2b06aaa34000 ---p 000f6000 08:11 8925829
/usr/lib/libstdc++.so.6.0.13
2b06aaa34000-2b06aaa3b000 r--p 000f6000 08:11 8925829
/usr/lib/libstdc++.so.6.0.13
2b06aaa3b000-2b06aaa3d000 rw-p 000fd000 08:11 8925829
/usr/lib/libstdc++.so.6.0.13
2b06aaa3d000-2b06aaa53000 rw-p 00000000 00:00 0
2b06aaa53000-2b06aab3e000 r-xp 00000000 08:11 8923073
/usr/lib/libgfortran.so.3.0.0
2b06aab3e000-2b06aad3d000 ---p 000eb000 08:11 8923073
/usr/lib/libgfortran.so.3.0.0
2b06aad3d000-2b06aad3e000 r--p 000ea000 08:11 8923073
/usr/lib/libgfortran.so.3.0.0
2b06aad3e000-2b06aad3f000 rw-p 000eb000 08:11 8923073
/usr/lib/libgfortran.so.3.0.0
2b06aad3f000-2b06aad40000 rw-p 00000000 00:00 0
2b06aad40000-2b06aadc2000 r-xp 00000000 08:11 5472443
/lib/libm-2.11.1.so
2b06aadc2000-2b06aafc1000 ---p 00082000 08:11 5472443
/lib/libm-2.11.1.so
2b06aafc1000-2b06aafc2000 r--p 00081000 08:11 5472443
/lib/libm-2.11.1.so
2b06aafc2000-2b06aafc3000 rw-p 00082000 08:11 5472443
/lib/libm-2.11.1.so
2b06aafc3000-2b06aafd9000 r-xp 00000000 08:11 5472417
/lib/libgcc_s.so.1
2b06aafd9000-2b06ab1d8000 ---p 00016000 08:11 5472417
/lib/libgcc_s.so.1
2b06ab1d8000-2b06ab1d9000 r--p 00015000 08:11 5472417
/lib/libgcc_s.so.1
2b06ab1d9000-2b06ab1da000 rw-p 00016000 08:11 5472417
/lib/libgcc_s.so.1
2b06ab1da000-2b06ab1db000 rw-p 00000000 00:00 0
2b06ab1db000-2b06ab355000 r-xp 00000000 08:11 5472513
/lib/libc-2.11.1.so
2b06ab355000-2b06ab554000 ---p 0017a000 08:11 5472513
/lib/libc-2.11.1.so
2b06ab554000-2b06ab558000 r--p 00179000 08:11 5472513
/lib/libc-2.11.1.so
2b06ab558000-2b06ab559000 rw-p 0017d000 08:11 5472513
/lib/libc-2.11.1.so
2b06ab559000-2b06ab55e000 rw-p 00000000 00:00 0
2b06ab55e000-2b06abcef000 r-xp 00000000 08:11 9209496
/usr/lib/atlas/libblas.so.3gf.0
2b06abcef000-2b06abeee000 ---p 00791000 08:11 9209496
/usr/lib/atlas/libblas.so.3gf.0
2b06abeee000-2b06abef3000 r--p 00790000 08:11 9209496
/usr/lib/atlas/libblas.so.3gf.0
2b06abef3000-2b06abef9000 rw-p 00795000 08:11 9209496
/usr/lib/atlas/libblas.so.3gf.0
2b06abef9000-2b06abefc000 rw-p 00000000 00:00 0
7fffd6dd9000-7fffd6df4000 rwxp 00000000 00:00 0 [stack]
7fffd6df4000-7fffd6df7000 rw-p 00000000 00:00 0
7fffd6dff000-7fffd6e00000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0
[vsyscall]
Aborted
J
Dr James Foadi PhD
Membrane Protein Laboratory
Diamond Light Source Ltd.
Diamond House
Harwell Science and Innovation Campus
Didcot
Oxfordshire
OX11 0DE
United Kingdom
office email: james.fo...@diamond.ac.uk
alternative email: j.fo...@imperial.ac.uk
