LaTeX warning explanation needed

Rich Shepard rshepard at appl-ecosys.com
Thu Oct 14 20:12:35 UTC 2021


On Thu, 14 Oct 2021, Paul A. Rubin wrote:

> Just checked the modified MWE and confirmed that setting UTF-8 as the
> input encoding still fixes things.

Paul,

While the MWE might be working, the main document still does not have the
bibliography with the Unicode (utf8) language setting.

If it's not the citations themselves it must be elsewhere. Most current
latex.log attached. I'll scroll through it, too.

Rich
-------------- next part --------------
This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2021 on Slint) (preloaded format=pdflatex 2021.10.13)  14 OCT 2021 12:57
entering extended mode
 restricted \write18 enabled.
 %&-line parsing enabled.
**biological-evaluation.tex
(./biological-evaluation.tex
LaTeX2e <2020-10-01> patch level 4
L3 programming layer <2021-02-18>
(/usr/share/texmf-dist/tex/latex/koma-script/scrreprt.cls
Document Class: scrreprt 2021/03/17 v3.33 KOMA-Script document class (report)
(/usr/share/texmf-dist/tex/latex/koma-script/scrkbase.sty
Package: scrkbase 2021/03/17 v3.33 KOMA-Script package (KOMA-Script-dependent b
asics and keyval usage)
(/usr/share/texmf-dist/tex/latex/koma-script/scrbase.sty
Package: scrbase 2021/03/17 v3.33 KOMA-Script package (KOMA-Script-independent 
basics and keyval usage)
(/usr/share/texmf-dist/tex/latex/koma-script/scrlfile.sty
Package: scrlfile 2021/03/17 v3.33 KOMA-Script package (file load hooks)
(/usr/share/texmf-dist/tex/latex/koma-script/scrlfile-hook.sty
Package: scrlfile-hook 2021/03/17 v3.33 KOMA-Script package (using LaTeX hooks)


LaTeX3 Info: Defining command \BeforeFile with sig. 'm' on line 61.


LaTeX3 Info: Defining command \AfterFile with sig. 'm' on line 65.


LaTeX3 Info: Defining command \BeforeClass with sig. 'm' on line 69.


LaTeX3 Info: Defining command \BeforePackage with sig. 'm' on line 73.


LaTeX3 Info: Defining command \AfterAtEndOfClass with sig. 'smo+m' on line 83.


LaTeX3 Info: Defining command \AfterAtEndOfPackage with sig. 'smo+m' on line
(LaTeX3)     93.


LaTeX3 Info: Defining command \scrlfile at AfterClass with sig. 'smo+m' on line
(LaTeX3)     173.


LaTeX3 Info: Defining command \AfterClass with sig. '' on line 174.


LaTeX3 Info: Defining command \scrlfile at AfterPackage with sig. 'smo+m' on line
(LaTeX3)     191.


LaTeX3 Info: Defining command \AfterPackage with sig. '' on line 192.


LaTeX3 Info: Defining command \ReplaceInput with sig. '' on line 193.


LaTeX3 Info: Defining command \ReplaceClass with sig. 'mm' on line 196.


LaTeX3 Info: Defining command \ReplacePackage with sig. 'mm' on line 199.


LaTeX3 Info: Defining command \UnReplaceInput with sig. '' on line 200.


LaTeX3 Info: Defining command \UnReplaceClass with sig. 'm' on line 203.


LaTeX3 Info: Defining command \UnReplacePackage with sig. 'mm' on line 206.


LaTeX3 Info: Defining command \PreventPackageFromLoading with sig. 's+om' on
(LaTeX3)     line 234.


LaTeX3 Info: Defining command \StorePreventPackageFromLoading with sig. 'm' on
(LaTeX3)     line 242.


LaTeX3 Info: Defining command \ResetPreventPackageFromLoading with sig. '' on
(LaTeX3)     line 247.


LaTeX3 Info: Defining command \UnPreventPackageFromLoading with sig. 'sm' on
(LaTeX3)     line 261.


LaTeX3 Info: Defining command \BeforeClosingMainAux with sig. 'om' on line
(LaTeX3)     274.


LaTeX3 Info: Defining command \AfterReadingMainAux with sig. 'om' on line 287.


LaTeX3 Info: Defining command \protected at immediate@write with sig. 'm+m+m' on
(LaTeX3)     line 298.

(/usr/share/texmf-dist/tex/latex/koma-script/scrlogo.sty
Package: scrlogo 2021/03/17 v3.33 KOMA-Script package (logo)
))) (/usr/share/texmf-dist/tex/latex/graphics/keyval.sty
Package: keyval 2014/10/28 v1.15 key=value parser (DPC)
\KV at toks@=\toks15
)
Skipping: [2021/05/01] Usage of raw option list on input line 252.
Applying: [0000/00/00] compatibility for LaTeX before 2021/05/01 on input line 
337.
)) (/usr/share/texmf-dist/tex/latex/koma-script/tocbasic.sty
Package: tocbasic 2021/03/17 v3.33 KOMA-Script package (handling toc-files)
\scr at dte@tocline at numberwidth=\skip47
\scr at dte@tocline at numbox=\box47
)
Package tocbasic Info: babel extension for `toc' omitted
(tocbasic)             because of missing \bbl at set@language on input line 137.
Class scrreprt Info: File `scrsize11pt.clo' used instead of
(scrreprt)           file `scrsize11.clo' to setup font sizes on input line 245
1.
(/usr/share/texmf-dist/tex/latex/koma-script/scrsize11pt.clo
File: scrsize11pt.clo 2021/03/17 v3.33 KOMA-Script font size class option (11pt
)
) (/usr/share/texmf-dist/tex/latex/koma-script/typearea.sty
Package: typearea 2021/03/17 v3.33 KOMA-Script package (type area)
\ta at bcor=\skip48
\ta at div=\count179
\ta at hblk=\skip49
\ta at vblk=\skip50
\ta at temp=\skip51
\footheight=\skip52
Package typearea Info: These are the values describing the layout:
(typearea)             DIV  = 10
(typearea)             BCOR = 0.0pt
(typearea)             \paperwidth      = 597.50793pt
(typearea)              \textwidth      = 418.25555pt
(typearea)              DIV departure   = -6%
(typearea)              \evensidemargin = 47.2316pt
(typearea)              \oddsidemargin  = -12.5192pt
(typearea)             \paperheight     = 845.04694pt
(typearea)              \textheight     = 514.20023pt
(typearea)              \topmargin      = 12.2347pt
(typearea)              \headheight     = 17.0pt
(typearea)              \headsep        = 20.40001pt
(typearea)              \topskip        = 11.0pt
(typearea)              \footskip       = 47.6pt
(typearea)              \baselineskip   = 13.6pt
(typearea)              on input line 1741.
)
\c at part=\count180
\c at chapter=\count181
\c at section=\count182
\c at subsection=\count183
\c at subsubsection=\count184
\c at paragraph=\count185
\c at subparagraph=\count186
\scr at dte@chapter at maxnumwidth=\skip53
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\chapter on input line 5678.
\scr at dte@section at maxnumwidth=\skip54
Class scrreprt Info: using compatibility default `runin=bysign'
(scrreprt)           for `\section on input line 5689.
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\section on input line 5689.
\scr at dte@part at maxnumwidth=\skip55
Class scrreprt Info: using compatibility default `afterindent=true'
(scrreprt)           for `\part on input line 5698.
\scr at dte@subsection at maxnumwidth=\skip56
Class scrreprt Info: using compatibility default `runin=bysign'
(scrreprt)           for `\subsection on input line 5708.
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\subsection on input line 5708.
\scr at dte@subsubsection at maxnumwidth=\skip57
Class scrreprt Info: using compatibility default `runin=bysign'
(scrreprt)           for `\subsubsection on input line 5718.
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\subsubsection on input line 5718.
\scr at dte@paragraph at maxnumwidth=\skip58
Class scrreprt Info: using compatibility default `runin=bysign'
(scrreprt)           for `\paragraph on input line 5729.
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\paragraph on input line 5729.
\scr at dte@subparagraph at maxnumwidth=\skip59
Class scrreprt Info: using compatibility default `runin=bysign'
(scrreprt)           for `\subparagraph on input line 5739.
Class scrreprt Info: using compatibility default `afterindent=bysign'
(scrreprt)           for `\subparagraph on input line 5739.
\abovecaptionskip=\skip60
\belowcaptionskip=\skip61
\c at pti@nb at sid@b at x=\box48
Package tocbasic Info: babel extension for `lof' omitted
(tocbasic)             because of missing \bbl at set@language on input line 6976.

\scr at dte@figure at maxnumwidth=\skip62
\c at figure=\count187
Package tocbasic Info: babel extension for `lot' omitted
(tocbasic)             because of missing \bbl at set@language on input line 6993.

\scr at dte@table at maxnumwidth=\skip63
\c at table=\count188
Class scrreprt Info: Redefining `\numberline' on input line 7162.
\bibindent=\dimen138
) (/usr/share/texmf-dist/tex/latex/base/fontenc.sty
Package: fontenc 2020/08/10 v2.0s Standard LaTeX package
) (/usr/share/texmf-dist/tex/latex/base/inputenc.sty
Package: inputenc 2020/08/01 v1.3d Input encoding file
\inpenc at prehook=\toks16
\inpenc at posthook=\toks17
) (/usr/share/texmf-dist/tex/latex/geometry/geometry.sty
Package: geometry 2020/01/02 v5.9 Page Geometry
(/usr/share/texmf-dist/tex/generic/iftex/ifvtex.sty
Package: ifvtex 2019/10/25 v1.7 ifvtex legacy package. Use iftex instead.
(/usr/share/texmf-dist/tex/generic/iftex/iftex.sty
Package: iftex 2020/03/06 v1.0d TeX engine tests
))
\Gm at cnth=\count189
\Gm at cntv=\count190
\c at Gm@tempcnt=\count191
\Gm at bindingoffset=\dimen139
\Gm at wd@mp=\dimen140
\Gm at odd@mp=\dimen141
\Gm at even@mp=\dimen142
\Gm at layoutwidth=\dimen143
\Gm at layoutheight=\dimen144
\Gm at layouthoffset=\dimen145
\Gm at layoutvoffset=\dimen146
\Gm at dimlist=\toks18
) (/usr/share/texmf-dist/tex/latex/base/textcomp.sty
Package: textcomp 2020/02/02 v2.0n Standard LaTeX package
) (/usr/share/texmf-dist/tex/latex/url/url.sty
\Urlmuskip=\muskip16
Package: url 2013/09/16  ver 3.4  Verb mode for urls, etc.
) (/usr/share/texmf-dist/tex/latex/graphics/graphicx.sty
Package: graphicx 2020/09/09 v1.2b Enhanced LaTeX Graphics (DPC,SPQR)
(/usr/share/texmf-dist/tex/latex/graphics/graphics.sty
Package: graphics 2020/08/30 v1.4c Standard LaTeX Graphics (DPC,SPQR)
(/usr/share/texmf-dist/tex/latex/graphics/trig.sty
Package: trig 2016/01/03 v1.10 sin cos tan (DPC)
) (/usr/share/texmf-dist/tex/latex/graphics-cfg/graphics.cfg
File: graphics.cfg 2016/06/04 v1.11 sample graphics configuration
)
Package graphics Info: Driver file: pdftex.def on input line 105.
(/usr/share/texmf-dist/tex/latex/graphics-def/pdftex.def
File: pdftex.def 2020/10/05 v1.2a Graphics/color driver for pdftex
))
\Gin at req@height=\dimen147
\Gin at req@width=\dimen148
) (/usr/share/texmf-dist/tex/latex/psnfss/mathpazo.sty
Package: mathpazo 2020/03/25 PSNFSS-v9.3 Palatino w/ Pazo Math (D.Puga, WaS) 
\symupright=\mathgroup4
) (/usr/share/texmf-dist/tex/latex/relsize/relsize.sty
Package: relsize 2013/03/29 ver 4.1
) (/usr/share/texmf-dist/tex/latex/koma-script/scrlayer-scrpage.sty
Package: scrlayer-scrpage 2021/03/17 v3.33 KOMA-Script package (end user interf
ace for scrlayer)
(/usr/share/texmf-dist/tex/latex/koma-script/scrlayer.sty
Package: scrlayer 2021/03/17 v3.33 KOMA-Script package (defining layers and pag
e styles)
Package scrlayer Info: Using already defined \footheight
(scrlayer)             hoping, that this is a length and
(scrlayer)             not only a macro on input line 136.
Package scrlayer Info: patching LaTeX kernel macro \pagestyle on input line 216
2.
)
Package scrlayer-scrpage Info: Makeing stand-alone element `pagehead' from
(scrlayer-scrpage)             alias to `pageheadfoot' on input line 1085.
Package scrlayer-scrpage Info: deactivating warning for font element
(scrlayer-scrpage)             `pagefoot' on input line 1109.
)
Package scrlayer-scrpage Info: auto-selection of `pagestyleset=KOMA-Script'.
1: section
(/usr/share/texmf-dist/tex/latex/biblatex/biblatex.sty
Package: biblatex 2019/12/01 v3.14 programmable bibliographies (PK/MW)
(/usr/share/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty
Package: pdftexcmds 2020-06-27 v0.33 Utility functions of pdfTeX for LuaTeX (HO
)
(/usr/share/texmf-dist/tex/generic/infwarerr/infwarerr.sty
Package: infwarerr 2019/12/03 v1.5 Providing info/warning/error messages (HO)
) (/usr/share/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty
Package: ltxcmds 2020-05-10 v1.25 LaTeX kernel commands for general use (HO)
)
Package pdftexcmds Info: \pdf at primitive is available.
Package pdftexcmds Info: \pdf at ifprimitive is available.
Package pdftexcmds Info: \pdfdraftmode found.
) (/usr/share/texmf-dist/tex/latex/etoolbox/etoolbox.sty
Package: etoolbox 2020/10/05 v2.5k e-TeX tools for LaTeX (JAW)
\etb at tempcnta=\count192
) (/usr/share/texmf-dist/tex/latex/kvoptions/kvoptions.sty
Package: kvoptions 2020-10-07 v3.14 Key value format for package options (HO)
(/usr/share/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty
Package: kvsetkeys 2019/12/15 v1.18 Key value parser (HO)
)) (/usr/share/texmf-dist/tex/latex/logreq/logreq.sty
Package: logreq 2010/08/04 v1.0 xml request logger
\lrq at indent=\count193
(/usr/share/texmf-dist/tex/latex/logreq/logreq.def
File: logreq.def 2010/08/04 v1.0 logreq spec v1.0
)) (/usr/share/texmf-dist/tex/latex/base/ifthen.sty
Package: ifthen 2014/09/29 v1.1c Standard LaTeX ifthen package (DPC)
)
\c at tabx@nest=\count194
\c at listtotal=\count195
\c at listcount=\count196
\c at liststart=\count197
\c at liststop=\count198
\c at citecount=\count199
\c at citetotal=\count266
\c at multicitecount=\count267
\c at multicitetotal=\count268
\c at instcount=\count269
\c at maxnames=\count270
\c at minnames=\count271
\c at maxitems=\count272
\c at minitems=\count273
\c at citecounter=\count274
\c at maxcitecounter=\count275
\c at savedcitecounter=\count276
\c at uniquelist=\count277
\c at uniquename=\count278
\c at refsection=\count279
\c at refsegment=\count280
\c at maxextratitle=\count281
\c at maxextratitleyear=\count282
\c at maxextraname=\count283
\c at maxextradate=\count284
\c at maxextraalpha=\count285
\c at abbrvpenalty=\count286
\c at highnamepenalty=\count287
\c at lownamepenalty=\count288
\c at maxparens=\count289
\c at parenlevel=\count290
\blx at tempcnta=\count291
\blx at tempcntb=\count292
\blx at tempcntc=\count293
\blx at maxsection=\count294
\blx at maxsegment@0=\count295
\blx at notetype=\count296
\blx at parenlevel@text=\count297
\blx at parenlevel@foot=\count298
\blx at sectionciteorder@0=\count299
\blx at entrysetcounter=\count300
\labelnumberwidth=\skip64
\labelalphawidth=\skip65
\biblabelsep=\skip66
\bibitemsep=\skip67
\bibnamesep=\skip68
\bibinitsep=\skip69
\bibparsep=\skip70
\bibhang=\skip71
\blx at bcfin=\read2
\blx at bcfout=\write3
\blx at langwohyphens=\language87
\c at mincomprange=\count301
\c at maxcomprange=\count302
\c at mincompwidth=\count303
Package biblatex Info: Trying to load biblatex default data model...
Package biblatex Info: ... file 'blx-dm.def' found.
(/usr/share/texmf-dist/tex/latex/biblatex/blx-dm.def
File: blx-dm.def 2019/12/01 v3.14 biblatex localization (PK/MW)
)
Package biblatex Info: Trying to load biblatex style data model...
Package biblatex Info: ... file 'authoryear.dbx' not found.
Package biblatex Info: Trying to load biblatex custom data model...
Package biblatex Info: ... file 'biblatex-dm.cfg' not found.
\c at afterword=\count304
\c at savedafterword=\count305
\c at annotator=\count306
\c at savedannotator=\count307
\c at author=\count308
\c at savedauthor=\count309
\c at bookauthor=\count310
\c at savedbookauthor=\count311
\c at commentator=\count312
\c at savedcommentator=\count313
\c at editor=\count314
\c at savededitor=\count315
\c at editora=\count316
\c at savededitora=\count317
\c at editorb=\count318
\c at savededitorb=\count319
\c at editorc=\count320
\c at savededitorc=\count321
\c at foreword=\count322
\c at savedforeword=\count323
\c at holder=\count324
\c at savedholder=\count325
\c at introduction=\count326
\c at savedintroduction=\count327
\c at namea=\count328
\c at savednamea=\count329
\c at nameb=\count330
\c at savednameb=\count331
\c at namec=\count332
\c at savednamec=\count333
\c at translator=\count334
\c at savedtranslator=\count335
\c at shortauthor=\count336
\c at savedshortauthor=\count337
\c at shorteditor=\count338
\c at savedshorteditor=\count339
\c at labelname=\count340
\c at savedlabelname=\count341
\c at institution=\count342
\c at savedinstitution=\count343
\c at lista=\count344
\c at savedlista=\count345
\c at listb=\count346
\c at savedlistb=\count347
\c at listc=\count348
\c at savedlistc=\count349
\c at listd=\count350
\c at savedlistd=\count351
\c at liste=\count352
\c at savedliste=\count353
\c at listf=\count354
\c at savedlistf=\count355
\c at location=\count356
\c at savedlocation=\count357
\c at organization=\count358
\c at savedorganization=\count359
\c at origlocation=\count360
\c at savedoriglocation=\count361
\c at origpublisher=\count362
\c at savedorigpublisher=\count363
\c at publisher=\count364
\c at savedpublisher=\count365
\c at language=\count366
\c at savedlanguage=\count367
\c at origlanguage=\count368
\c at savedoriglanguage=\count369
\c at pageref=\count370
\c at savedpageref=\count371
\shorthandwidth=\skip72
\shortjournalwidth=\skip73
\shortserieswidth=\skip74
\shorttitlewidth=\skip75
\shortauthorwidth=\skip76
\shorteditorwidth=\skip77
\locallabelnumberwidth=\skip78
\locallabelalphawidth=\skip79
\localshorthandwidth=\skip80
\localshortjournalwidth=\skip81
\localshortserieswidth=\skip82
\localshorttitlewidth=\skip83
\localshortauthorwidth=\skip84
\localshorteditorwidth=\skip85
Package biblatex Info: Trying to load compatibility code...
Package biblatex Info: ... file 'blx-compat.def' found.
(/usr/share/texmf-dist/tex/latex/biblatex/blx-compat.def
File: blx-compat.def 2019/12/01 v3.14 biblatex compatibility (PK/MW)
)
Package biblatex Info: Trying to load generic definitions...
Package biblatex Info: ... file 'biblatex.def' found.
(/usr/share/texmf-dist/tex/latex/biblatex/biblatex.def
File: biblatex.def 2019/12/01 v3.14 biblatex compatibility (PK/MW)
\c at textcitecount=\count372
\c at textcitetotal=\count373
\c at textcitemaxnames=\count374
\c at biburlbigbreakpenalty=\count375
\c at biburlbreakpenalty=\count376
\c at biburlnumpenalty=\count377
\c at biburlucpenalty=\count378
\c at biburllcpenalty=\count379
\biburlbigskip=\muskip17
\biburlnumskip=\muskip18
\biburlucskip=\muskip19
\biburllcskip=\muskip20
\c at smartand=\count380
)
Package biblatex Info: Trying to load natbib compatibility...
Package biblatex Info: ... file 'blx-natbib.def' found.
(/usr/share/texmf-dist/tex/latex/biblatex/blx-natbib.def
File: blx-natbib.def 2019/12/01 v3.14 biblatex compatibility (PK/MW)
Package biblatex Info: Delimiter 'nameyeardelim' in context '' already defined,
 overwriting.
)
Package biblatex Info: Trying to load bibliography style 'authoryear'...
Package biblatex Info: ... file 'authoryear.bbx' found.
(/usr/share/texmf-dist/tex/latex/biblatex/bbx/authoryear.bbx
File: authoryear.bbx 2019/12/01 v3.14 biblatex bibliography style (PK/MW)
Package biblatex Info: Trying to load bibliography style 'standard'...
Package biblatex Info: ... file 'standard.bbx' found.
(/usr/share/texmf-dist/tex/latex/biblatex/bbx/standard.bbx
File: standard.bbx 2019/12/01 v3.14 biblatex bibliography style (PK/MW)
\c at bbx:relatedcount=\count381
\c at bbx:relatedtotal=\count382
))
Package biblatex Info: Trying to load citation style 'authoryear'...
Package biblatex Info: ... file 'authoryear.cbx' found.
(/usr/share/texmf-dist/tex/latex/biblatex/cbx/authoryear.cbx
File: authoryear.cbx 2019/12/01 v3.14 biblatex citation style (PK/MW)
Package biblatex Info: Redefining '\cite'.
Package biblatex Info: Redefining '\parencite'.
Package biblatex Info: Redefining '\footcite'.
Package biblatex Info: Redefining '\footcitetext'.
Package biblatex Info: Redefining '\smartcite'.
Package biblatex Info: Redefining '\textcite'.
Package biblatex Info: Redefining '\textcites'.
)
Package biblatex Info: Trying to load configuration file...
Package biblatex Info: ... file 'biblatex.cfg' found.
(/usr/share/texmf-dist/tex/latex/biblatex/biblatex.cfg
File: biblatex.cfg 
))
\@quotelevel=\count383
\@quotereset=\count384
LaTeX Font Info:    Trying to load font information for T1+ppl on input line 45
.
(/usr/share/texmf-dist/tex/latex/psnfss/t1ppl.fd
File: t1ppl.fd 2001/06/04 font definitions for T1/ppl.
) (/usr/share/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def
File: l3backend-pdftex.def 2021-03-18 L3 backend support: PDF output (pdfTeX)
\l__color_backend_stack_int=\count385
\l__pdf_internal_box=\box49
) (./biological-evaluation.aux)
\openout1 = `biological-evaluation.aux'.

LaTeX Font Info:    Checking defaults for OML/cmm/m/it on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for OMS/cmsy/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for OT1/cmr/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for T1/cmr/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for TS1/cmr/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for OMX/cmex/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
LaTeX Font Info:    Checking defaults for U/cmr/m/n on input line 45.
LaTeX Font Info:    ... okay on input line 45.
Package scrbase Info: activating english \contentsname on input line 45.
Package scrbase Info: activating english \listfigurename on input line 45.
Package scrbase Info: activating english \listtablename on input line 45.
*geometry* driver: auto-detecting
*geometry* detected driver: pdftex

Package geometry Warning: The marginal notes overrun the paper.
     Add 28.75017pt and more to the right margin.

*geometry* verbose mode - [ preamble ] result:
* driver: pdftex
* paper: letterpaper
* layout: <same size as paper>
* layoutoffset:(h,v)=(0.0pt,0.0pt)
* modes: twoside 
* h-part:(L,W,R)=(56.9055pt, 483.67337pt, 73.71613pt)
* v-part:(T,H,B)=(113.81102pt, 624.25346pt, 56.9055pt)
* \paperwidth=614.295pt
* \paperheight=794.96999pt
* \textwidth=483.67337pt
* \textheight=624.25346pt
* \oddsidemargin=-15.36449pt
* \evensidemargin=1.44614pt
* \topmargin=-18.13809pt
* \headheight=17.0pt
* \headsep=42.67912pt
* \topskip=11.0pt
* \footskip=47.6pt
* \marginparwidth=89.62619pt
* \marginparsep=12.8401pt
* \columnsep=10.0pt
* \skip\footins=10.0pt plus 4.0pt minus 2.0pt
* \hoffset=0.0pt
* \voffset=0.0pt
* \mag=1000
* \@twocolumnfalse
* \@twosidetrue
* \@mparswitchtrue
* \@reversemarginfalse
* (1in=72.27pt=25.4mm, 1cm=28.453pt)

(/usr/share/texmf-dist/tex/context/base/mkii/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
\scratchcounter=\count386
\scratchdimen=\dimen149
\scratchbox=\box50
\nofMPsegments=\count387
\nofMParguments=\count388
\everyMPshowfont=\toks19
\MPscratchCnt=\count389
\MPscratchDim=\dimen150
\MPnumerator=\count390
\makeMPintoPDFobject=\count391
\everyMPtoPDFconversion=\toks20
) (/usr/share/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty
Package: epstopdf-base 2020-01-24 v2.11 Base part for package epstopdf
(/usr/share/texmf-dist/tex/latex/grfext/grfext.sty
Package: grfext 2019/12/03 v1.3 Manage graphics extensions (HO)
(/usr/share/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty
Package: kvdefinekeys 2019-12-19 v1.6 Define keys (HO)
))
Package epstopdf-base Info: Redefining graphics rule for `.eps' on input line 4
85.
Package grfext Info: Graphics extension search list:
(grfext)             [.pdf,.png,.jpg,.mps,.jpeg,.jbig2,.jb2,.PDF,.PNG,.JPG,.JPE
G,.JBIG2,.JB2,.eps]
(grfext)             \AppendGraphicsExtensions on input line 504.
(/usr/share/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg
File: epstopdf-sys.cfg 2010/07/13 v1.3 Configuration of (r)epstopdf for TeX Liv
e
))
\big at size=\dimen151
Package biblatex Info: Trying to load language 'english'...
Package biblatex Info: ... file 'english.lbx' found.
(/usr/share/texmf-dist/tex/latex/biblatex/lbx/english.lbx
File: english.lbx 2019/12/01 v3.14 biblatex localization (PK/MW)
)
Package biblatex Info: Input encoding 'utf8' detected.
Package biblatex Info: Automatic encoding selection.
(biblatex)             Assuming data encoding 'utf8'.
\openout3 = `biological-evaluation.bcf'.

Package biblatex Info: Trying to load bibliographic data...
Package biblatex Info: ... file 'biological-evaluation.bbl' not found.
No file biological-evaluation.bbl.
Package biblatex Info: Reference section=0 on input line 45.
Package biblatex Info: Reference segment=0 on input line 45.
<1_home_rshepard_documents_templates_llc-letterhead.pdf, id=1, 530.02815pt x 15
7.62086pt>
File: 1_home_rshepard_documents_templates_llc-letterhead.pdf Graphic file (type
 pdf)
<use 1_home_rshepard_documents_templates_llc-letterhead.pdf>
Package pdftex.def Info: 1_home_rshepard_documents_templates_llc-letterhead.pdf
  used on input line 56.
(pdftex.def)             Requested size: 483.67337pt x 143.84166pt.
LaTeX Font Info:    Trying to load font information for T1+cmss on input line 5
6.
(/usr/share/texmf-dist/tex/latex/base/t1cmss.fd
File: t1cmss.fd 2019/12/16 v2.5j Standard LaTeX font definitions
)
LaTeX Font Info:    Trying to load font information for OT1+ppl on input line 5
6.
(/usr/share/texmf-dist/tex/latex/psnfss/ot1ppl.fd
File: ot1ppl.fd 2001/06/04 font definitions for OT1/ppl.
)
LaTeX Font Info:    Trying to load font information for OML+zplm on input line 
56.
(/usr/share/texmf-dist/tex/latex/psnfss/omlzplm.fd
File: omlzplm.fd 2002/09/08 Fontinst v1.914 font definitions for OML/zplm.
)
LaTeX Font Info:    Trying to load font information for OMS+zplm on input line 
56.
(/usr/share/texmf-dist/tex/latex/psnfss/omszplm.fd
File: omszplm.fd 2002/09/08 Fontinst v1.914 font definitions for OMS/zplm.
)
LaTeX Font Info:    Trying to load font information for OMX+zplm on input line 
56.
(/usr/share/texmf-dist/tex/latex/psnfss/omxzplm.fd
File: omxzplm.fd 2002/09/08 Fontinst v1.914 font definitions for OMX/zplm.
)
LaTeX Font Info:    Trying to load font information for OT1+zplm on input line 
56.
(/usr/share/texmf-dist/tex/latex/psnfss/ot1zplm.fd
File: ot1zplm.fd 2002/09/08 Fontinst v1.914 font definitions for OT1/zplm.
)

LaTeX Warning: No \author given.

[1



{/usr/share/texmf-var/fonts/map/pdftex/updmap/pdftex.map} <./1_home_rshepard_do
cuments_templates_llc-letterhead.pdf>] (./biological-evaluation.toc)
\tf at toc=\write4
\openout4 = `biological-evaluation.toc'.

[1

] (./biological-evaluation.lof
Overfull \hbox (3.70705pt too wide) in paragraph at lines 11--11
 \T1/ppl/m/n/10.95 River, Ore-gon.". Pub-lished by West-ern Color Sales Inc., P
ort-land, Ore-gon. Card #K1806. 
 []

)
\tf at lof=\write5
\openout5 = `biological-evaluation.lof'.

[2

]
chapter 1.
<2_home_rshepard_projects_washington_nevins-dock_images_nevins-project.png, id=
28, 908.39375pt x 875.27pt>
File: 2_home_rshepard_projects_washington_nevins-dock_images_nevins-project.png
 Graphic file (type png)
<use 2_home_rshepard_projects_washington_nevins-dock_images_nevins-project.png>

Package pdftex.def Info: 2_home_rshepard_projects_washington_nevins-dock_images
_nevins-project.png  used on input line 95.
(pdftex.def)             Requested size: 483.67337pt x 466.04112pt.
<3_home_rshepard_projects_washington_nevins-dock_images_bathymetry.png, id=30, 
803.0pt x 602.25pt>
File: 3_home_rshepard_projects_washington_nevins-dock_images_bathymetry.png Gra
phic file (type png)
<use 3_home_rshepard_projects_washington_nevins-dock_images_bathymetry.png>
Package pdftex.def Info: 3_home_rshepard_projects_washington_nevins-dock_images
_bathymetry.png  used on input line 113.
(pdftex.def)             Requested size: 483.67337pt x 287.19133pt.
[1



] [2 <./2_home_rshepard_projects_washington_nevins-dock_images_nevins-project.p
ng (PNG copy)>] [3 <./3_home_rshepard_projects_washington_nevins-dock_images_ba
thymetry.png>]
chapter 2.

LaTeX Warning: Citation 'Groot1991' on page 4 undefined on input line 151.


LaTeX Warning: Citation 'Marcoe2018' on page 4 undefined on input line 167.

LaTeX Font Info:    Trying to load font information for T1+cmtt on input line 1
79.
(/usr/share/texmf-dist/tex/latex/base/t1cmtt.fd
File: t1cmtt.fd 2019/12/16 v2.5j Standard LaTeX font definitions
) [4

]
LaTeX Font Info:    Trying to load font information for TS1+ppl on input line 1
90.
(/usr/share/texmf-dist/tex/latex/psnfss/ts1ppl.fd
File: ts1ppl.fd 2001/06/04 font definitions for TS1/ppl.
) [5]
<4_home_rshepard_projects_washington_nevins-dock_images_sandy_river_smelting.jp
g, id=57, 96.36pt x 61.9113pt>
File: 4_home_rshepard_projects_washington_nevins-dock_images_sandy_river_smelti
ng.jpg Graphic file (type jpg)
<use 4_home_rshepard_projects_washington_nevins-dock_images_sandy_river_smeltin
g.jpg>
Package pdftex.def Info: 4_home_rshepard_projects_washington_nevins-dock_images
_sandy_river_smelting.jpg  used on input line 278.
(pdftex.def)             Requested size: 483.67337pt x 310.81114pt.
[6] [7 <./4_home_rshepard_projects_washington_nevins-dock_images_sandy_river_sm
elting.jpg>]

LaTeX Warning: Citation 'VanDoornik2019' on page 8 undefined on input line 356.


[8]

LaTeX Warning: Citation 'Keefer2008' on page 9 undefined on input line 364.


LaTeX Warning: Citation 'Johnson2005' on page 9 undefined on input line 389.

[9]

LaTeX Warning: Citation 'McCabe1994' on page 10 undefined on input line 428.

[10]
chapter 3.
<5_home_rshepard_projects_washington_nevins-dock_analyses_current.pdf, id=76, 4
33.62pt x 433.62pt>
File: 5_home_rshepard_projects_washington_nevins-dock_analyses_current.pdf Grap
hic file (type pdf)
<use 5_home_rshepard_projects_washington_nevins-dock_analyses_current.pdf>
Package pdftex.def Info: 5_home_rshepard_projects_washington_nevins-dock_analys
es_current.pdf  used on input line 490.
(pdftex.def)             Requested size: 483.67337pt x 483.69922pt.
<6_home_rshepard_projects_washington_nevins-dock_analyses_discharge.pdf, id=78,
 433.62pt x 433.62pt>
File: 6_home_rshepard_projects_washington_nevins-dock_analyses_discharge.pdf Gr
aphic file (type pdf)
<use 6_home_rshepard_projects_washington_nevins-dock_analyses_discharge.pdf>
Package pdftex.def Info: 6_home_rshepard_projects_washington_nevins-dock_analys
es_discharge.pdf  used on input line 499.
(pdftex.def)             Requested size: 483.67337pt x 483.69922pt.
<7_home_rshepard_projects_washington_nevins-dock_analyses_stage.pdf, id=80, 433
.62pt x 433.62pt>
File: 7_home_rshepard_projects_washington_nevins-dock_analyses_stage.pdf Graphi
c file (type pdf)
<use 7_home_rshepard_projects_washington_nevins-dock_analyses_stage.pdf>
Package pdftex.def Info: 7_home_rshepard_projects_washington_nevins-dock_analys
es_stage.pdf  used on input line 507.
(pdftex.def)             Requested size: 483.67337pt x 483.69922pt.
<8_home_rshepard_projects_washington_nevins-dock_analyses_suspended-sediments.p
df, id=82, 433.62pt x 433.62pt>
File: 8_home_rshepard_projects_washington_nevins-dock_analyses_suspended-sedime
nts.pdf Graphic file (type pdf)
<use 8_home_rshepard_projects_washington_nevins-dock_analyses_suspended-sedimen
ts.pdf>
Package pdftex.def Info: 8_home_rshepard_projects_washington_nevins-dock_analys
es_suspended-sediments.pdf  used on input line 528.
(pdftex.def)             Requested size: 483.67337pt x 483.69922pt.
<9_home_rshepard_projects_washington_nevins-dock_analyses_turbidity.pdf, id=84,
 433.62pt x 433.62pt>
File: 9_home_rshepard_projects_washington_nevins-dock_analyses_turbidity.pdf Gr
aphic file (type pdf)
<use 9_home_rshepard_projects_washington_nevins-dock_analyses_turbidity.pdf>
Package pdftex.def Info: 9_home_rshepard_projects_washington_nevins-dock_analys
es_turbidity.pdf  used on input line 536.
(pdftex.def)             Requested size: 483.67337pt x 483.69922pt.
[11

] [12 <./5_home_rshepard_projects_washington_nevins-dock_analyses_current.pdf>]
[13 <./6_home_rshepard_projects_washington_nevins-dock_analyses_discharge.pdf>]
[14 <./7_home_rshepard_projects_washington_nevins-dock_analyses_stage.pdf>] [15
] [16 <./8_home_rshepard_projects_washington_nevins-dock_analyses_suspended-sed
iments.pdf>] [17 <./9_home_rshepard_projects_washington_nevins-dock_analyses_tu
rbidity.pdf>]
chapter 4.

Overfull \hbox (30.55435pt too wide) in paragraph at lines 566--566
  [][]$\T1/cmtt/m/n/9 https : / / www . columbiacommunityconnection . com / the
-[]dalles / high-[]water-[]temps-[]killing-[]fish-[]in-[]the-[]columbia-[]river
$| 
 []


LaTeX Warning: Citation 'Poole2001' on page 18 undefined on input line 570.

[18

]
chapter 5.
[19

]
chapter 6.

LaTeX Warning: Empty bibliography on input line 616.

[20

]

LaTeX3 Info: Redefining command \BeforeClosingMainAux with sig. 'm' on line
(LaTeX3)     618.


LaTeX3 Info: Redefining command \BeforeClosingMainAux with sig. 'm' on line
(LaTeX3)     618.


LaTeX3 Info: Redefining command \BeforeClosingMainAux with sig. 'm' on line
(LaTeX3)     618.


LaTeX3 Info: Redefining command \BeforeClosingMainAux with sig. 'm' on line
(LaTeX3)     618.

(./biological-evaluation.aux)

LaTeX Warning: There were undefined references.


Package biblatex Warning: Please (re)run Biber on the file:
(biblatex)                biological-evaluation
(biblatex)                and rerun LaTeX afterwards.

Package logreq Info: Writing requests to 'biological-evaluation.run.xml'.
\openout1 = `biological-evaluation.run.xml'.

 ) 
Here is how much of TeX's memory you used:
 14188 strings out of 478994
 300336 string characters out of 5864719
 1140630 words of memory out of 5000000
 31509 multiletter control sequences out of 15000+600000
 437317 words of font info for 94 fonts, out of 8000000 for 9000
 1141 hyphenation exceptions out of 8191
 111i,21n,116p,10660b,1191s stack positions out of 5000i,500n,10000p,200000b,80000s
 </home/rshepard/.texlive2021/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt0900.
600pk> </home/rshepard/.texlive2021/texmf-var/fonts/pk/ljfour/jknappen/ec/ecsx1
200.600pk>{/usr/share/texmf-dist/fonts/enc/dvips/base/8r.enc} </home/rshepard/.
texlive2021/texmf-var/fonts/pk/ljfour/jknappen/ec/ecsx1440.600pk> </home/rshepa
rd/.texlive2021/texmf-var/fonts/pk/ljfour/jknappen/ec/ecsx1095.600pk> </home/rs
hepard/.texlive2021/texmf-var/fonts/pk/ljfour/jknappen/ec/ecsx2074.600pk></usr/
share/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/share/texmf-di
st/fonts/type1/urw/palatino/uplb8a.pfb></usr/share/texmf-dist/fonts/type1/urw/p
alatino/uplr8a.pfb></usr/share/texmf-dist/fonts/type1/urw/palatino/uplr8a.pfb><
/usr/share/texmf-dist/fonts/type1/urw/palatino/uplri8a.pfb>
Output written on biological-evaluation.pdf (23 pages, 1899345 bytes).
PDF statistics:
 382 PDF objects out of 1000 (max. 8388607)
 129 compressed objects within 2 object streams
 0 named destinations out of 1000 (max. 500000)
 94 words of extra memory for PDF output out of 10000 (max. 10000000)



More information about the lyx-users mailing list