Adult Onset Atheist

Wednesday, March 18, 2015

Saint Paddy's Pantsuit.

Theology, I have been told, is the spiritual quest for answers to life’s bottomless questions. In my life questions tend to form in ever increasing variety in direct proportion to the amount of attention I wish to apply to things around me.

The other day, for instance, a very attractive youngish woman wearing a lime green pantsuit caught my attention. Like a wounded fish splashing about in pool of information the widening, but constrained, cacophony of wavelets splayed out as a pattern of questions lacking answers; each point in time the pools surface was disturbed requested some answer, and like ripples on a pond ignoring them would hasten their disappearance faster than any examination. In other words, the questions were endless, but quite trivial.

Some of my more in-tuned readers will note that yesterday was Saint Patrick’s day, and that many people were wearing clothing in various shades of green. That is true, and it is also true that Saint Augustine of Hippo converted to Christianity the year that Saint Patrick was born (387 CE).

Saint Augustine of Hippo, after his conversion to Christianity at age 32, stated that the Greeks had defined theology as “de diuinitate rationem siue sermonem" (reasoning or discourse about the divine). Unfortunately, St A from Hippo did not think the reasoning of just anyone was welcome; only those that truly believed. It was not until long after his death (on 28 August 430) that the idea of silencing the reasoning and discourse of non believers on divine topics would take a more organized violent turn. Mr. A of Hippo did not explain the obvious irony in his statements; he attributed his definition to the Greeks who were Pagans by his standards, and therefore could not be trusted to engage in the “rationem siue sermonem” they created his term for. A similar Irony would be used by Dante, who would employ the Roman (and therefore Pagan) poet Virgil to show him around hell only to leave him behind when Dante entered Heaven because Virgil, who died a Pagan, could not pass into Heaven.

Neque enim hoc opere omnes omnium philosophorum uanas opiniones refutare suscepi, sed eas tantum, quae ad theologian pertinent, quo uerbo Graeco significari intellegimus de diuinitate rationem siue sermonem; nec eas omnium, sed eorum tantum, qui cum et esse diuinitatem et humana curare consentiant, non tamen sufficere unius incommutabilis Dei cultum ad uitam adipiscendam etiam post mortem beatam, sed multos ab illo sane uno conditos atque institutos ob eam causam colendos putant.” – Saint Augustine of Hippo (De Civitate Dei contra Paganos : Liber VIII:i)

Saint A was writing this information in his runaway bestseller “De Civitate Dei contra Paganos” (The City of God Against the Pagans) published in 426 CE. The book’s intended audience was the citizens of Rome which had been sacked by the Visigoths in 410 CE. At the time the Visigoths were pagans as they would not convert to Christianity till 589 CE. Saint A’s book defended Christianity and God against the reasonable questions of why an all powerful God, and the church which worshiped it, should fall so easily to the Visigoth army of king Aleric. In searching the original text of “De Civitate Dei contra Paganos” (a difficult task since I am barely literate in Latin) I have not found mention, or explanation, for the slaughter of tens of thousands of Goth families in 408 CE as a result of directions given by Christian Roman Emperor Honorius. This is not a piece of history that should be lost as the Catholic Church has a lineage of Popes named “Honorius”, with the first ascending to the papacy way back in 625 CE (27 October). Interestingly the first Pope Honorius would be anathemetized by the third council of Constantinople on purely theological grounds.

In the modern tradition divine is too common to be reserved for elite groups of true believers to examine. Ralph Waldo Emerson stated that: “Every man is a divinity in disguise, a god playing the fool.”, and the status of reasoning and discourse on the internets suggests that he might have been onto something. Unfortunately the ubiquitous divine is so mundane and common that it approaches triviality.

The trivial nature of the questions the sighting of the woman in the lime green pantsuit is really not in question:

      “Why lime green?”
      “Bellbottoms and wide lapels?”
      “Was that a thrift store find?”

Even the more ironic questions were trivial:

     “Is that pantsuit made of double-knit polyester? That style of pantsuit should be made of double-knit polyester, but nothing should really ever be made of double-knit polyester.”
      “I would probably find that woman attractive in many outfits, but she may not have caught my eye if she were wearing something less bizarre, and therefore I may not have found her attractive at all. So does wearing the pantsuit make her more attractive?”
      “Is she wearing the pantsuit, or is the pantsuit wearing her?”

The questions could be incredibly complex:

     “Do double-knit polyesters contribute to global warming?”

That is a question that is asked easily enough, but what are the implications of those aspects of the petroleum industry that are needed to create the polyesters, and at what level of capacity is there an increase in efficiency over small and intermediate scale production? Is the ease in creating the fabric using plastic outweighed by the low carbon footprint of some harder-to-use natural fibers? If the pant-suit lasts forever does its longevity offset production impacts? And the list of compelling factors goes on, and on, and on….

She raised questions about eternity:

    “How long will that pantsuit exist after she has turned to dust, and modern Earth’s civilization itself is forgotten?”

 She raised questions about the entire universe:

     “Will they be able to produce a good Star Trek reboot, and will they wear lime green pantsuits?”

But for all the layers and swirls, lights and shadows, the image of those questions remained trivial. I had seen an attractive woman, who I may not have even wanted to meet, wearing a lime green pantsuit. The less intrinsically trivial questions had only a trivial association with the short-lived sighting. However, the collection of questions, and the implications of further questions, describe a bottomless inquiry; the sort of inquiry that theology is there to assist with.

Why this examination of theology? Theology is the rational face of theism, and as Atheists we are often called upon to have some sort of “Atheology”, but it is difficult to examine the study of something that does not exist. Saint A’s Idea that theology is believers thinking about God  is a great idea if you have enough authoritarian muscle to make the discussions mean something painfully true. In a secular society theology has become more ephemeral; the more cynical might summarize it as being “the totality of all things meaningless that it is important for you to believe as long as we get your tithing”.

The pretty woman in a lime green pantsuit is as important as any theological figure. She raises questions intrinsic to her existence, and those questions are as large as the inquiry makes them. Most modern practitioners of open-theism do not dare nail their beliefs to anything stable. Modern theology will continue to become more ephemeral with every passing generation. Even now the beliefs of self-identifying Atheists and the vast majority of Christians (who only reflexively identify as Christian) are more similar on once-important topics than they are different. This is a good thing… even if everyone decides to begin wearing brightly-colored double-knit-polyester pantsuits like those from some 1970s utopian science fiction movie.



Monday, October 27, 2014

Ebola II

Many people have been asking me about Ebola lately. The following are some of my personal views on the subject. They do not necessarily represent the views of any organization with which I may be affiliated, and should not be interpreted as any official communication by anyone.

Boatloads -literally- of money has now been spent responding to the wildly out-of-control Ebola epidemic in Western Africa, and it appears to be having a measurable impact on the progression of the epidemic. Both case levels and number of deaths continue to trend significantly less than the simple exponential model would suggest. The number of cases ending in death also appears to be decreasing. It is much too early to tell if this very positive development will be enough to stop the epidemic, but it is appears to be very promising.

Because of the striking symptomology, and relatively ease with which the infected can be contained, it is not surprising that large-scale active intervention could reverse the horrible trends the epidemic was following. It is possible that simple intervention could wipe out this epidemic, but a vaccine still remains the best hope for completely stopping it with the least number of casualties.

In the following graph I’ve tried to re-create the graphic from my last post. Instead of a simple exponential regression curve I have created a curve that mimics what we would have expected if the epidemic continued to increase exponentially. As of October 23rd we would have seen 3,779 more cases, and 1,191 more deaths if the severity of the epidemic had continued to increase exponentially.

This shows the trend of EVD cases and mortality for the 2014 Western Africa epidemic (as of October 23rd).  The red and green lines show WHO reported cases and deaths respectively.  The blue and purple lines are exponential models drawn from a regression analysis of WHO data from the first 100 days I followed this. 


It is not overly jaded to suggest that it took exporting Ebola patients to more developed nations to mobilize the effort that appears to be yielding results. However, this reduces recognizing the amazing efforts of those men and women who are making a difference to some kind of moral-political statement about the collective conscience of developed nations. These men and women have earned recognition, and we should provide it.

Unfortunately blog posts like this one do a much better job of making moral-political statements about the collective conscience of developed nations.

Before we began exporting the wholesale help that appears to be making a difference we had been exporting a commodity we make way too much of: stupidity. Before the antivaxers began mobilizing against the fantastical mind-control purpose behind the Ebola vaccines now in trial. Before the teabaggers began clutching at any possibility of the Obama administration being in any way associated with the possibility of misstep in any response to Ebola patients in the US. Before the xenophobic isolationists began demanding a shutdown of any movement of people of African descent. Before any of this we had begun exporting the “real” reasons for the epidemic, and a host of “effective cures [they] don’t want you to know about”.

This type of foolishness might sound like nothing more than the discardable musings of internet trolls, and from the perspective of most of the readers of this blog it is. However, to people using limited resources to combat an impossibly expanding horror it could be more; it could provide much needed hope and blame.

“The US Department of Defense (DoD) is funding Ebola trials on humans, trials which started just weeks before the Ebola outbreak in Guinea and Sierra Leone. The reports continue and state that the DoD gave a contract worth $140 million dollars to Tekmira, a Canadian pharmaceutical company, to conduct Ebola research. This research work involved injecting and infusing healthy humans with the deadly Ebola virus. Hence, the DoD is listed as a collaborator in a “First in Human” Ebola clinical trial (NCT02041715, which started in January 2014 shortly before an Ebola epidemic was declared in West Africa in March.” -- Cyril Broderick, A Liberian scientist and a former professor of Plant Pathology at the University of Liberia’s College of Agriculture and Forestry.

A major Liberian newspaper published an article blaming the US department of defense of creating the epidemic. A patent created in the pre-supreme court decision on patenting existing life forms rush to patent everything was found for a strain of Ebola; this proved Ebola is a GMO. Motives were fielded for why an Ebola epidemic would be profitable; arguments for the potential validity of the motives became arguments for the validity of the conspiracy theories themselves.

Response in West Africa took a turn for the worst when quarantines upset important food distribution networks. Ebola patients reportedly escaped “treatment” facilities in search of food because they knew Ebola only killed 50% of its victims, while starvation killed 100%. People hid their sick friends and relatives because the state was not going to provide the “effective cures [they] don’t want you to know about”. Tracking people exposed to the virus was replaced by trying to keep track of those who died. Eventually it became impossible to provide accurate information. Bodies were being cremated before relatives knew the patient was sick.

In mid September eight aid workers were killed, and their bodies shoved into a latrine. It was thought that the disinfectant they were spraying was actually the Ebola virus.

I could pontificate about the dangers of rampant stupidity, but what good does that do? I doubt readers of this blog are even aware of even half of these Ebola conspiracies; unless they are ferreting them out for enjoyment.

It is not as if good information was unavailable. It is not even a situation where good information was hard to find. It is just that the extreme blame and hope of the fringe spokespeople in the US is much more compelling.

Possibly more important than compelling is the fact that people who got good information are doing stuff, and it appears to be working. Homeopaths Without Borders did not swoop in and cure everyone with distilled water. The citizens of West Africa did not simply cut gluten out of their diet. The drones spraying Ebola were not shot out of the sky. No.   Real people did real stuff.... and sometimes that works.





Thursday, October 9, 2014

Ebola

Many people have been asking me about Ebola lately. The following are some of my personal views on the subject. They do not necessarily represent the views of any organization with which I may be affiliated, and should not be interpreted as any official communication by anyone.

Ebola Virus causes a nasty disease. The current Ebola Virus Disease (EVD) epidemic in Western Africa is running almost unchecked through a population ill-prepared to counter it.

It is unlikely that EVD will cause a global pandemic. The progression of the EVD epidemic is slow, and those who are sick are easily contained. There is also an effective vaccine on the near horizon. The EVD epidemic will be stopped; my notoriously unreliable crystal ball tells me it will be fully contained by next summer. Unfortunately it is out of control now, and it is likely that tens of thousands of people will die of EVD in Western Africa before it is stopped.

It is so likely that tens of thousands will die that it is possible to assign a statistical confidence to that prediction. Simply plotting the reported numbers yields a trace that displays an uncanny adherence to an exponential growth rate. Through a statistical process known as regression analysis one can generate an average trace of the data (shown as the black lines in the following chart).

Total cases and mortality data from WHO-reports as of 5 October 2014 Click to view larger


The mechanism for generating the average trace also generates a statistic –called “R-squared”- that tells us how well the average line describes the data. An R-squared value of 0 would mean that the trace described none of the data, and an R-squared value of 1 would suggest that the average line described 100% of the variability of the data. The R-squared value I generate for the average trace of the mortality data from the last several months of the EVD epidemic is 0.9951.

An R-squared value of 0.8-or-so for an exponentially increasing average line would strongly suggest that the epidemic was out of control. An R-squared of 0.9951 suggests that none of the response measures implemented to date have had any measurable effect on the progression of the epidemic. There is no fine detail in this trace, and it may be that unexpected setbacks have perfectly offset any effective countermeasures. However you look at it these data are very “not good” in a bad way.

The trace also provides a strong reason not to worry about this EVD epidemic breaking out and creating a global pandemic. The upward “slope” of the trace is just not steep enough. Almost a hundred years ago today, peaking in October and November of 1918, the Spanish influenza epidemic swept through the world’s population. In just a few months it infected as many as half a billion people; killing as many as 60 million. By the time the Spanish influenza epidemic was over it infected as many as 800 million people and killed as many as 100 million; all between January 1918 and December 1920. EVD is not fast enough to outpace the world’s response in the way that Spanish Influenza did.

Notice, in the above description of the Spanish Influenza epidemic, my use of wishy-washy soft-data language. I use “as many as” four times. This is because we do not really know how many people died of the Spanish Influenza. In 1918 the social structure needed to even count the people dying became too overburdened to operate effectively. The lower number of people killed worldwide is half as large as the maximums I provided. There are mass graves.

The social machinery which counts the number of EVD deaths in Western Africa is showing signs that it is being pushed beyond its breaking point. There is informed speculation that as many as several EVD cases actually exist for every case reported. There have been reports of bodies left to rot in the street, or forgotten to ripen in some back bedroom of some apartment.

The World Health Organization (WHO) was, until September, providing disease outbreak news every couple of days; until some WHO healthworkers caught EVD, and died. Now they are providing Situation reports every two-to-six days; sometimes significantly revising the numbers of previous reports. Without a means of protection at least as effective as a good vaccine some of the first to succumb to an epidemic are the people needed to properly track the epidemic’s progress. With a super-rapid epidemic like Spanish Influenza in the informationally-challenged early 20th century the obstacles to effective data management must have been insurmountably huge.

To understand why EVD is less contagious, and therefore less likely to cause a global pandemic, than a disease like Spanish Influenza it is worthwhile to look at the basic biology of viruses.

Viruses are not really alive. They are essentially a sticky capsule of bad instructions. The instructions essentially say “make more virus”, and the sticky outside of the capsule cause it to attach to cells that can load and run the bad instructions. In some cases, like for HIV, the instructions say something like “make more virus slowly for a long time”; for viruses like influenza and Ebola the instructions say “make more virus as fast as you can until you explode”. The sticky capsule can be specific for certain types of cells. The tiny Polio virus capsules preferentially attach to nerve cells, and so the polio disease is characterized by paralysis. Influenza capsules attach to cells in the throat, and so the virus is shed into the phlegm that is converted into airborne droplets when someone with the Flu coughs or sneezes.

Ebola virus attaches to many different cells in the body. As it circulates through the body in the bloodstream it is presented first to capillary walls. When the thin capillary walls are weakened by the liquefaction of cells that died while furiously making new virus the capillaries themselves begin to leak.  At  this early stage of infection the body mobilizes defenses which cause the temperature of the body to rise. It is possible for a person who has been properly exposed to Ebola to fight off the disease in this early stage, before it manages to cause much damage; otherwise exploding capillary cells continue to spew more and more virus into the bloodstream, and the infection spirals out of control.

Most of the noticeable symptomology of hemorrhagic diseases like EVD occur in places where there are large concentrations of capillaries. Most EVD patients die in this intermediate stage of failures in capillary-rich internal organs, like kidneys. Given luck, or competent supportive care, an EVD patient can live into the final stages of the disease.

The fact that only about 5% of western African patients are surviving to the spectacular terminal phase of EVD probably suggests a lack of comprehensive supportive care. The first active Ebola case in the US (Thomas Eric Duncan ) received such comprehensive supportive care that relatives declined to view him via remote video (he was in an isolation unit) because it was “too disturbing”.

In the terminal stages the capillaries become completely porous, and begin leaking blood as well as fluid. The sclera of the eye fills with blood; there may be blood tears. Blood leaks through the capillary-rich intestinal linings into the digestive tract, and from there gushes out the rectum; the patient uncontrollably vomits blood. Blood begins to ooze from mucous membranes; the gums bleed, the nose bleeds, the genitals will bleed. The skin itself will begin to boil in blood-filled blisters. Grape-sized blisters will erupt from the skin, and burst to release virus laden bloody fluid.

All of these copious fluids are infectious. They are not easily handled. Sticky virus-laden goo gets in everything. Untrained individuals can get it in their hair, and noses, and in their car, and bring it home, and all without noticing. It is unsurprising that EVD spreads; even without the formation of the respiratory droplets which worked so well for Spanish Influenza.

The voraciousness with which viruses like Influenza and Ebola eat through their target cells actually makes it more likely that effective vaccines can be made against them. Good vaccine candidates have already been created for Ebola. Ramping up production of at least one of those candidates will only take months rather than years. It will likely be the fielding of a vaccine in the first half of 2015 that will end this epidemic.

The fielding of the vaccine will stop the epidemic in its tracks. Over a hundred thousand corpses will likely be left in its wake, but it will be impossible for any future EVD epidemics of the Zaire strain to reach the numbers we see even today.

So, should you be scared of Ebola? Yes. Ebola causes a terrible-horrible-scary disease which will kill tens of thousands of people in the coming weeks. That sort of thing is scary. It scares me.

Will Ebola destroy civilization as we know it? No. Not even close.